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Conserved domains on  [gi|1958803004|ref|XP_038939752|]
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GTP-binding protein 2 isoform X4 [Rattus norvegicus]

Protein Classification

sulfate adenylyltransferase subunit 1; selenocysteine-specific translation elongation factor( domain architecture ID 10135033)

sulfate adenylyltransferase subunit 1 similar to CysN, which acts a regulatory GTPase and is an essential component of the ATP sulfurylase, which catalyzes and couples the energy of GTP hydrolysis to the synthesis of adenosine 5'-phosphosulfate (APS)| selenocysteine-specific translation elongation factor binds GTP and GDP and transfers selenocysteyl-tRNA to the ribosome

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GTPBP1_like cd04165
GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 ...
 23-243 7.32e-131

GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and survival. This fusion product may contribute to the onset of GBM.


:

Pssm-ID: 206728 [Multi-domain]  Cd Length: 224  Bit Score: 376.63  E-value: 7.32e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  23 RVAVLGNVDSGKSTLLGVLTQGELDNGRGRARLNLFRHLHEIQSGRTSSISFEILGFNSKGEVVNYSDSRTAE---EICE 99
Cdd:cd04165     1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNDILGFDSDGEVVNYPDNHLGEldvEICE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 100 SSSKMITFIDLAGHHKYLHTTIFGLTSYCPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:cd04165    81 KSSKVVTFIDLAGHERYLKTTVFGMTGYAPDYAMLVVGANAGIIGMTKEHLGLALALKVPVFVVVTKIDMTPANVLQETL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958803004 180 RQLERVLKQPGCHKVPMLVTSEDDAVTAAQQFaQSPNVTPIFTLSSVSGESLDLLKVFLNILPP 243
Cdd:cd04165   161 KDLKRLLKSPGVRKLPVPVKSKDDVVLSASNL-SSGRVVPIFQVSNVTGEGLDLLRRFLNLLPP 223
GTPBP_III cd03708
Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and ...
 350-437 1.64e-42

Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in the cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


:

Pssm-ID: 294007 [Multi-domain]  Cd Length: 87  Bit Score: 144.97  E-value: 1.64e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 350 TICSVFEAEIVLLFHATTFRRGFQVTVHVGNVRQTAVVEKIHaKDKLRTGEKAVVRFRFLKHPEYLKVGAKLLFREGVTK 429
Cdd:cd03708     1 RACWEFEAEVLVLHHPTTISPGYQPVVHCGTIRQTARIISID-KEVLRTGDRALVRFRFLYRPEYLREGQRLIFREGRTK 79


                  ....*...
gi 1958803004 430 GIGHVTDV 437
Cdd:cd03708    80 GIGTVTKV 87
GTPBP_II cd03694
Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to ...
 258-344 4.70e-41

Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


:

Pssm-ID: 293895 [Multi-domain]  Cd Length: 87  Bit Score: 141.20  E-value: 4.70e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 258 TEFQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDDGCFLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLR 337
Cdd:cd03694     1 FEFQIDDIYSVPGVGTVVSGTVSKGVIREGDTLLLGPDADGKFRPVTVKSIHRNRQPVDRARAGQSASFALKKIKRESLR 80


                  ....*..
gi 1958803004 338 KGMVMVS 344
Cdd:cd03694    81 KGMVLVS 87
 
Name Accession Description Interval E-value
GTPBP1_like cd04165
GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 ...
 23-243 7.32e-131

GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and survival. This fusion product may contribute to the onset of GBM.


Pssm-ID: 206728 [Multi-domain]  Cd Length: 224  Bit Score: 376.63  E-value: 7.32e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  23 RVAVLGNVDSGKSTLLGVLTQGELDNGRGRARLNLFRHLHEIQSGRTSSISFEILGFNSKGEVVNYSDSRTAE---EICE 99
Cdd:cd04165     1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNDILGFDSDGEVVNYPDNHLGEldvEICE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 100 SSSKMITFIDLAGHHKYLHTTIFGLTSYCPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:cd04165    81 KSSKVVTFIDLAGHERYLKTTVFGMTGYAPDYAMLVVGANAGIIGMTKEHLGLALALKVPVFVVVTKIDMTPANVLQETL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958803004 180 RQLERVLKQPGCHKVPMLVTSEDDAVTAAQQFaQSPNVTPIFTLSSVSGESLDLLKVFLNILPP 243
Cdd:cd04165   161 KDLKRLLKSPGVRKLPVPVKSKDDVVLSASNL-SSGRVVPIFQVSNVTGEGLDLLRRFLNLLPP 223
GTPBP_III cd03708
Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and ...
 350-437 1.64e-42

Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in the cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 294007 [Multi-domain]  Cd Length: 87  Bit Score: 144.97  E-value: 1.64e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 350 TICSVFEAEIVLLFHATTFRRGFQVTVHVGNVRQTAVVEKIHaKDKLRTGEKAVVRFRFLKHPEYLKVGAKLLFREGVTK 429
Cdd:cd03708     1 RACWEFEAEVLVLHHPTTISPGYQPVVHCGTIRQTARIISID-KEVLRTGDRALVRFRFLYRPEYLREGQRLIFREGRTK 79


                  ....*...
gi 1958803004 430 GIGHVTDV 437
Cdd:cd03708    80 GIGTVTKV 87
GTPBP_II cd03694
Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to ...
 258-344 4.70e-41

Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 293895 [Multi-domain]  Cd Length: 87  Bit Score: 141.20  E-value: 4.70e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 258 TEFQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDDGCFLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLR 337
Cdd:cd03694     1 FEFQIDDIYSVPGVGTVVSGTVSKGVIREGDTLLLGPDADGKFRPVTVKSIHRNRQPVDRARAGQSASFALKKIKRESLR 80


                  ....*..
gi 1958803004 338 KGMVMVS 344
Cdd:cd03694    81 KGMVLVS 87
SelB COG3276
Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure ...
 105-439 3.70e-26

Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure and biogenesis]; Selenocysteine-specific translation elongation factor SelB is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 442507 [Multi-domain]  Cd Length: 630  Bit Score: 111.54  E-value: 3.70e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 105 ITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVP-FFIVVSKVDLCAKTTVERTVRQLE 183
Cdd:COG3276    53 LGFVDVPGHEKFIKNMLAGAGGI--DLVLLVVAADEGVMPQTREHLAILDLLGIKrGIVVLTKADLVDEEWLELVEEEIR 130

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 184 RVLKQpgchkvpmlvTSEDDAvtaaqqfaqspnvtPIFTLSSVSGESLDLLKVFLnilppltnskeqEELMQQLTEFQ-- 261
Cdd:COG3276   131 ELLAG----------TFLEDA--------------PIVPVSAVTGEGIDELRAAL------------DALAAAVPARDad 174

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 262 ------VDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDdgcfLELRVCSIQ-RNRSACRVlRAGQAATLALGDFDRA 334
Cdd:COG3276   175 gpfrlpIDRVFSIKGFGTVVTGTLLSGTVRVGDELELLPSG----KPVRVRGIQvHGQPVEEA-YAGQRVALNLAGVEKE 249

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 335 LLRKGMVMVSPEmNPTICSVFEAEIVLLFHAT-TFRRGFQVTVHVGNVRQTAVVeKIHAKDKLRTGEKAVVRFRfLKHPE 413
Cdd:COG3276   250 EIERGDVLAAPG-ALRPTDRIDVRLRLLPSAPrPLKHWQRVHLHHGTAEVLARV-VLLDREELAPGEEALAQLR-LEEPL 326

                         330       340
                  ....*....|....*....|....*....
gi 1958803004 414 YLKVGAKLLFREG---VTKGIGHVTDVQA 439
Cdd:COG3276   327 VAARGDRFILRDYsprRTIGGGRVLDPNP 355
GTP_EFTU pfam00009
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in ...
 24-243 3.38e-23

Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.


Pssm-ID: 425418 [Multi-domain]  Cd Length: 187  Bit Score: 96.44  E-value: 3.38e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTQ--GELDNGRGRA---RLNLFRHLHEIQSGRTSSISfeilgfnskgevvnysdsrTAEeiC 98
Cdd:pfam00009   6 IGIIGHVDHGKTTLTDRLLYytGAISKRGEVKgegEAGLDNLPEERERGITIKSA-------------------AVS--F 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  99 ESSSKMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERT 178
Cdd:pfam00009  65 ETKDYLINLIDTPGHVDFVKEVIRGLAQ--ADGAILVVDAVEGVMPQTREHLRLARQLGVPIIVFINKMDRVDGAELEEV 142

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958803004 179 VRQLERVLkqpgchkvpmlvtseddavtaAQQFAQSPNVTPIFTLSSVSGESLD-LLKVFLNILPP 243
Cdd:pfam00009 143 VEEVSREL---------------------LEKYGEDGEFVPVVPGSALKGEGVQtLLDALDEYLPS 187
PRK10512 PRK10512
selenocysteinyl-tRNA-specific translation factor; Provisional
 24-339 2.00e-12

selenocysteinyl-tRNA-specific translation factor; Provisional


Pssm-ID: 182508 [Multi-domain]  Cd Length: 614  Bit Score: 69.31  E-value: 2.00e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTqgeldnGRGRARLNlfrhlHEIQSGRTSSisfeiLGFNskgevvnY---SDSRtaeeices 100
Cdd:PRK10512    3 IATAGHVDHGKTTLLQAIT------GVNADRLP-----EEKKRGMTID-----LGYA-------YwpqPDGR-------- 51

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 101 sskMITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLG-LALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:PRK10512   52 ---VLGFIDVPGHEKFLSNMLAGVGGI--DHALLVVACDDGVMAQTREHLAiLQLTGNPMLTVALTKADRVDEARIAEVR 126

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 180 RQLErvlkqpgchkvpmlvtseddAVTAAQQFAQSpnvtPIFTLSSVSGESLDLLKVFLNILPpltnskEQEELMQQLTE 259
Cdd:PRK10512  127 RQVK--------------------AVLREYGFAEA----KLFVTAATEGRGIDALREHLLQLP------EREHAAQHRFR 176

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 260 FQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVgptdDGCFLELRVCSIQRNRSACRVLRAGQAATLAL-GDFDRALLRK 338
Cdd:PRK10512  177 LAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWL----TGVNKPMRVRGLHAQNQPTEQAQAGQRIALNIaGDAEKEQINR 252


                  .
gi 1958803004 339 G 339
Cdd:PRK10512  253 G 253
GTP_EFTU_D2 pfam03144
Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this ...
 272-343 2.61e-05

Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to pfam03143, and in fact has weak sequence matches to this domain.


Pssm-ID: 427163 [Multi-domain]  Cd Length: 73  Bit Score: 42.25  E-value: 2.61e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958803004 272 GTVVGGTLSSGICREGDQLVVGPTD-DGCFLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLRKGMVMV 343
Cdd:pfam03144   1 GTVATGRVESGTLKKGDKVRILPNGtGKKKIVTRVTSLLMFHAPLREAVAGDNAGLILAGVGLEDIRVGDTLT 73
PRK05506 PRK05506
bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
 277-360 8.33e-03

bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional


Pssm-ID: 180120 [Multi-domain]  Cd Length: 632  Bit Score: 38.76  E-value: 8.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 277 GTLSSGICREGDQLVVGPTddGCflELRVCSIQRNRSACRVLRAGQAATLALGD-FDralLRKGMVMVSPEMNPTICSVF 355
Cdd:PRK05506  261 GTVASGVVRPGDEVVVLPS--GK--TSRVKRIVTPDGDLDEAFAGQAVTLTLADeID---ISRGDMLARADNRPEVADQF 333


                  ....*
gi 1958803004 356 EAEIV 360
Cdd:PRK05506  334 DATVV 338
 
Name Accession Description Interval E-value
GTPBP1_like cd04165
GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 ...
 23-243 7.32e-131

GTP binding protein 1 (GTPBP1)-like family includes GTPBP2; Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and survival. This fusion product may contribute to the onset of GBM.


Pssm-ID: 206728 [Multi-domain]  Cd Length: 224  Bit Score: 376.63  E-value: 7.32e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  23 RVAVLGNVDSGKSTLLGVLTQGELDNGRGRARLNLFRHLHEIQSGRTSSISFEILGFNSKGEVVNYSDSRTAE---EICE 99
Cdd:cd04165     1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNDILGFDSDGEVVNYPDNHLGEldvEICE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 100 SSSKMITFIDLAGHHKYLHTTIFGLTSYCPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:cd04165    81 KSSKVVTFIDLAGHERYLKTTVFGMTGYAPDYAMLVVGANAGIIGMTKEHLGLALALKVPVFVVVTKIDMTPANVLQETL 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958803004 180 RQLERVLKQPGCHKVPMLVTSEDDAVTAAQQFaQSPNVTPIFTLSSVSGESLDLLKVFLNILPP 243
Cdd:cd04165   161 KDLKRLLKSPGVRKLPVPVKSKDDVVLSASNL-SSGRVVPIFQVSNVTGEGLDLLRRFLNLLPP 223
GTPBP_III cd03708
Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and ...
 350-437 1.64e-42

Domain III of the GP-1 family of GTPases; This family includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in the cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 294007 [Multi-domain]  Cd Length: 87  Bit Score: 144.97  E-value: 1.64e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 350 TICSVFEAEIVLLFHATTFRRGFQVTVHVGNVRQTAVVEKIHaKDKLRTGEKAVVRFRFLKHPEYLKVGAKLLFREGVTK 429
Cdd:cd03708     1 RACWEFEAEVLVLHHPTTISPGYQPVVHCGTIRQTARIISID-KEVLRTGDRALVRFRFLYRPEYLREGQRLIFREGRTK 79


                  ....*...
gi 1958803004 430 GIGHVTDV 437
Cdd:cd03708    80 GIGTVTKV 87
GTPBP_II cd03694
Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to ...
 258-344 4.70e-41

Domain II of the GTPBP family of GTP binding proteins; This group includes proteins similar to GTPBP1 and GTPBP2. GTPBP1 is structurally related to elongation factor 1 alpha, a key component of the protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.


Pssm-ID: 293895 [Multi-domain]  Cd Length: 87  Bit Score: 141.20  E-value: 4.70e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 258 TEFQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDDGCFLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLR 337
Cdd:cd03694     1 FEFQIDDIYSVPGVGTVVSGTVSKGVIREGDTLLLGPDADGKFRPVTVKSIHRNRQPVDRARAGQSASFALKKIKRESLR 80


                  ....*..
gi 1958803004 338 KGMVMVS 344
Cdd:cd03694    81 KGMVLVS 87
GTP_translation_factor cd00881
GTP translation factor family primarily contains translation initiation, elongation and ...
 23-243 2.85e-36

GTP translation factor family primarily contains translation initiation, elongation and release factors; The GTP translation factor family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.


Pssm-ID: 206647 [Multi-domain]  Cd Length: 183  Bit Score: 131.65  E-value: 2.85e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  23 RVAVLGNVDSGKSTLLGVLTQGELDNGRGRARLNLF--RHLHEIQSGRTSSISFEILGFNSKgevvnysdsrtaeeices 100
Cdd:cd00881     1 NVGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFldTLKEERERGITIKTGVVEFEWPKR------------------ 62

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 101 sskMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERTVR 180
Cdd:cd00881    63 ---RINFIDTPGHEDFSKETVRGLAQ--ADGALLVVDANEGVEPQTREHLNIALAGGLPIIVAVNKIDRVGEEDFDEVLR 137

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958803004 181 QLERVLKQPGCHKVPmlvtseddavtaaqqfaqsPNVTPIFTLSSVSGES-LDLLKVFLNILPP 243
Cdd:cd00881   138 EIKELLKLIGFTFLK-------------------GKDVPIIPISALTGEGiEELLDAIVEHLPP 182
SelB COG3276
Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure ...
 105-439 3.70e-26

Selenocysteine-specific translation elongation factor SelB [Translation, ribosomal structure and biogenesis]; Selenocysteine-specific translation elongation factor SelB is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 442507 [Multi-domain]  Cd Length: 630  Bit Score: 111.54  E-value: 3.70e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 105 ITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVP-FFIVVSKVDLCAKTTVERTVRQLE 183
Cdd:COG3276    53 LGFVDVPGHEKFIKNMLAGAGGI--DLVLLVVAADEGVMPQTREHLAILDLLGIKrGIVVLTKADLVDEEWLELVEEEIR 130

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 184 RVLKQpgchkvpmlvTSEDDAvtaaqqfaqspnvtPIFTLSSVSGESLDLLKVFLnilppltnskeqEELMQQLTEFQ-- 261
Cdd:COG3276   131 ELLAG----------TFLEDA--------------PIVPVSAVTGEGIDELRAAL------------DALAAAVPARDad 174

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 262 ------VDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDdgcfLELRVCSIQ-RNRSACRVlRAGQAATLALGDFDRA 334
Cdd:COG3276   175 gpfrlpIDRVFSIKGFGTVVTGTLLSGTVRVGDELELLPSG----KPVRVRGIQvHGQPVEEA-YAGQRVALNLAGVEKE 249

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 335 LLRKGMVMVSPEmNPTICSVFEAEIVLLFHAT-TFRRGFQVTVHVGNVRQTAVVeKIHAKDKLRTGEKAVVRFRfLKHPE 413
Cdd:COG3276   250 EIERGDVLAAPG-ALRPTDRIDVRLRLLPSAPrPLKHWQRVHLHHGTAEVLARV-VLLDREELAPGEEALAQLR-LEEPL 326

                         330       340
                  ....*....|....*....|....*....
gi 1958803004 414 YLKVGAKLLFREG---VTKGIGHVTDVQA 439
Cdd:COG3276   327 VAARGDRFILRDYsprRTIGGGRVLDPNP 355
GTP_EFTU pfam00009
Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in ...
 24-243 3.38e-23

Elongation factor Tu GTP binding domain; This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.


Pssm-ID: 425418 [Multi-domain]  Cd Length: 187  Bit Score: 96.44  E-value: 3.38e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTQ--GELDNGRGRA---RLNLFRHLHEIQSGRTSSISfeilgfnskgevvnysdsrTAEeiC 98
Cdd:pfam00009   6 IGIIGHVDHGKTTLTDRLLYytGAISKRGEVKgegEAGLDNLPEERERGITIKSA-------------------AVS--F 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  99 ESSSKMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERT 178
Cdd:pfam00009  65 ETKDYLINLIDTPGHVDFVKEVIRGLAQ--ADGAILVVDAVEGVMPQTREHLRLARQLGVPIIVFINKMDRVDGAELEEV 142

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958803004 179 VRQLERVLkqpgchkvpmlvtseddavtaAQQFAQSPNVTPIFTLSSVSGESLD-LLKVFLNILPP 243
Cdd:pfam00009 143 VEEVSREL---------------------LEKYGEDGEFVPVVPGSALKGEGVQtLLDALDEYLPS 187
TEF1 COG5256
Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and ...
 22-410 9.10e-18

Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Translation elongation factor EF-1alpha (GTPase) is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 444074 [Multi-domain]  Cd Length: 423  Bit Score: 84.98  E-value: 9.10e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  22 LRVAVLGNVDSGKSTL-------LGVLTQGELDNGR------GRARLN----LFRHLHEIQSGRTSSISFEilGFNSKge 84
Cdd:COG5256     8 LNLVVIGHVDHGKSTLvgrllyeTGAIDEHIIEKYEeeaekkGKESFKfawvMDRLKEERERGVTIDLAHK--KFETD-- 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  85 vvNYsdsrtaeeicessskMITFIDLAGHHKYLHTTIFGlTSYCpDCALLLVSANTGIAGTTREHLGLALALKVPFFIV- 163
Cdd:COG5256    84 --KY---------------YFTIIDAPGHRDFVKNMITG-ASQA-DAAILVVSAKDGVMGQTREHAFLARTLGINQLIVa 144

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 164 VSKVDLC--AKTTVERTVRQLERVLKQPG--CHKVPMLVTSeddAVTAAQQFAQSPNvTPIF---TLSsvsgESLDLLKV 236
Cdd:COG5256   145 VNKMDAVnySEKRYEEVKEEVSKLLKMVGykVDKIPFIPVS---AWKGDNVVKKSDN-MPWYngpTLL----EALDNLKE 216

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 237 flnilPPLTNSKEqeelmqqlTEFQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTddGCFLELRvcSIQRNRSACR 316
Cdd:COG5256   217 -----PEKPVDKP--------LRIPIQDVYSISGIGTVPVGRVETGVLKVGDKVVFMPA--GVVGEVK--SIEMHHEELE 279

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 317 VLRAGQAATLALGDFDRALLRKGMVMVSPEMNPTICSVFEAEIVLLFHATTFRRGFQVTVHVGN----VRQTAVVEKIHA 392
Cdd:COG5256   280 QAEPGDNIGFNVRGVEKNDIKRGDVAGHPDNPPTVAEEFTAQIVVLQHPSAITVGYTPVFHVHTaqvaCTFVELVSKLDP 359

                         410       420
                  ....*....|....*....|....*..
gi 1958803004 393 K---------DKLRTGEKAVVRFRFLK 410
Cdd:COG5256   360 RtgqvkeenpQFLKTGDAAIVKIKPTK 386
SelB cd04171
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; ...
 28-243 2.08e-16

SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains bacterial SelBs, as well as, one from archaea.


Pssm-ID: 206734 [Multi-domain]  Cd Length: 170  Bit Score: 76.49  E-value: 2.08e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  28 GNVDSGKSTLLGVLTQGELDngrgrarlnlfrHLHEIQSgRTSSISfeiLGFNskgevvnYSDSRtaeeicesSSKMITF 107
Cdd:cd04171     6 GHIDHGKTTLIKALTGIETD------------RLPEEKK-RGITID---LGFA-------YLDLP--------DGKRLGF 54

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 108 IDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVPFFIVV-SKVDLCAKTTVERTVRQLERVL 186
Cdd:cd04171    55 IDVPGHEKFVKNMLAGAGGI--DAVLLVVAADEGIMPQTREHLEILELLGIKKGLVVlTKADLVDEDRLELVEEEILELL 132

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1958803004 187 KQPGCHKVpmlvtseddavtaaqqfaqspnvtPIFTLSSVSGESLDLLKVFLNILPP 243
Cdd:cd04171   133 AGTFLADA------------------------PIFPVSSVTGEGIEELKNYLDELAE 165
PRK10512 PRK10512
selenocysteinyl-tRNA-specific translation factor; Provisional
 24-339 2.00e-12

selenocysteinyl-tRNA-specific translation factor; Provisional


Pssm-ID: 182508 [Multi-domain]  Cd Length: 614  Bit Score: 69.31  E-value: 2.00e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTqgeldnGRGRARLNlfrhlHEIQSGRTSSisfeiLGFNskgevvnY---SDSRtaeeices 100
Cdd:PRK10512    3 IATAGHVDHGKTTLLQAIT------GVNADRLP-----EEKKRGMTID-----LGYA-------YwpqPDGR-------- 51

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 101 sskMITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLG-LALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:PRK10512   52 ---VLGFIDVPGHEKFLSNMLAGVGGI--DHALLVVACDDGVMAQTREHLAiLQLTGNPMLTVALTKADRVDEARIAEVR 126

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 180 RQLErvlkqpgchkvpmlvtseddAVTAAQQFAQSpnvtPIFTLSSVSGESLDLLKVFLNILPpltnskEQEELMQQLTE 259
Cdd:PRK10512  127 RQVK--------------------AVLREYGFAEA----KLFVTAATEGRGIDALREHLLQLP------EREHAAQHRFR 176

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 260 FQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVgptdDGCFLELRVCSIQRNRSACRVLRAGQAATLAL-GDFDRALLRK 338
Cdd:PRK10512  177 LAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWL----TGVNKPMRVRGLHAQNQPTEQAQAGQRIALNIaGDAEKEQINR 252


                  .
gi 1958803004 339 G 339
Cdd:PRK10512  253 G 253
PLN03127 PLN03127
Elongation factor Tu; Provisional
 22-437 1.06e-09

Elongation factor Tu; Provisional


Pssm-ID: 178673 [Multi-domain]  Cd Length: 447  Bit Score: 60.22  E-value: 1.06e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  22 LRVAVLGNVDSGKSTLLGVLTqgeldngrgrarlnlfRHLHEIqsGRTSSISFEILGF----NSKGEVVNysdsrTAEEI 97
Cdd:PLN03127   62 VNVGTIGHVDHGKTTLTAAIT----------------KVLAEE--GKAKAVAFDEIDKapeeKARGITIA-----TAHVE 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  98 CESSSKMITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVPFFIV-VSKVDLCAKTT-- 174
Cdd:PLN03127  119 YETAKRHYAHVDCPGHADYVKNMITGAAQM--DGGILVVSAPDGPMPQTKEHILLARQVGVPSLVVfLNKVDVVDDEEll 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 175 --VERTVRQLERVLKQPGcHKVPMLVTSeddAVTAAQQFAQSPNVTPIftlssvsgesLDLLKVFLNILPPLTNSKEQEE 252
Cdd:PLN03127  197 elVEMELRELLSFYKFPG-DEIPIIRGS---ALSALQGTNDEIGKNAI----------LKLMDAVDEYIPEPVRVLDKPF 262

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 253 LMqqltefQVDEIYTVPEVGTVVGGTLSSGICREGDQL-VVGPTDDGCfLELRVCSIQRNRsacRVLRAGQAAT---LAL 328
Cdd:PLN03127  263 LM------PIEDVFSIQGRGTVATGRVEQGTIKVGEEVeIVGLRPGGP-LKTTVTGVEMFK---KILDQGQAGDnvgLLL 332

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 329 GDFDRALLRKGMVMVSPEMNPTIcSVFEAEIVLLfhatTFRRGFQVTVHVGNVR-----QTAvveKIHAKDKLRTGEKAV 403
Cdd:PLN03127  333 RGLKREDVQRGQVICKPGSIKTY-KKFEAEIYVL----TKDEGGRHTPFFSNYRpqfylRTA---DVTGKVELPEGVKMV 404

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|.
gi 1958803004 404 -----VRFRF-LKHPEYLKVGAKLLFRE-GVTKGIGHVTDV 437
Cdd:PLN03127  405 mpgdnVTAVFeLISPVPLEPGQRFALREgGRTVGAGVVSKV 445
PLN00043 PLN00043
elongation factor 1-alpha; Provisional
 22-418 5.47e-09

elongation factor 1-alpha; Provisional


Pssm-ID: 165621 [Multi-domain]  Cd Length: 447  Bit Score: 58.18  E-value: 5.47e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  22 LRVAVLGNVDSGKSTLLGVLTQ--GELDN------GRGRARLNL--FRH---LHEIQSGRTSSISFEILGFnsKGEVVNY 88
Cdd:PLN00043    8 INIVVIGHVDSGKSTTTGHLIYklGGIDKrvierfEKEAAEMNKrsFKYawvLDKLKAERERGITIDIALW--KFETTKY 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  89 sdsrtaeeicessskMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTG-------IAGTTREHLGLALALKVPFF 161
Cdd:PLN00043   86 ---------------YCTVIDAPGHRDFIKNMITGTSQ--ADCAVLIIDSTTGgfeagisKDGQTREHALLAFTLGVKQM 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 162 IVV-SKVDlcaKTTVERTVRQLERVLKQpgchkvpmlvtseddAVTAAQQFAQSPNVTPIFTLSSVSGESLDLLKVFLN- 239
Cdd:PLN00043  149 ICCcNKMD---ATTPKYSKARYDEIVKE---------------VSSYLKKVGYNPDKIPFVPISGFEGDNMIERSTNLDw 210

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 240 -----ILPPLTNSKEQEELMQQLTEFQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDdgcfLELRVCSIQRNRSA 314
Cdd:PLN00043  211 ykgptLLEALDQINEPKRPSDKPLRLPLQDVYKIGGIGTVPVGRVETGVIKPGMVVTFGPTG----LTTEVKSVEMHHES 286

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 315 CRVLRAGQAATLALGDFDRALLRKGMVMVSPEMNPTICSV-FEAEIVLLFHATTFRRGFQVTVHVGNVRQTAVVEKIHAK 393
Cdd:PLN00043  287 LQEALPGDNVGFNVKNVAVKDLKRGYVASNSKDDPAKEAAnFTSQVIIMNHPGQIGNGYAPVLDCHTSHIAVKFAEILTK 366

                         410       420
                  ....*....|....*....|....*
gi 1958803004 394 DKLRTGEKavvrfrFLKHPEYLKVG 418
Cdd:PLN00043  367 IDRRSGKE------LEKEPKFLKNG 385
SelB_euk cd01889
SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; ...
 24-188 6.90e-09

SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryotes, they do share a common feature. Unlike in E. coli, these SECIS elements are located in the 3' UTRs. This group contains eukaryotic SelBs and some from archaea.


Pssm-ID: 206676 [Multi-domain]  Cd Length: 192  Bit Score: 55.45  E-value: 6.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTQ----GELDngrgrarlnlfRHLHEIQSGRTSSisfeiLGFNSKgeVVNYSDSRTAEEICE 99
Cdd:cd01889     3 VGLLGHVDSGKTSLAKALSEiastAAFD-----------KNPQSQERGITLD-----LGFSSF--EVDKPKHLEDNENPQ 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 100 SSSKMITFIDLAGHHKYLHTTIFGltSYCPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTTVERTV 179
Cdd:cd01889    65 IENYQITLVDCPGHASLIRTIIGG--AQIIDLMLLVVDAKKGIQTQTAECLVIGELLCKPLIVVLNKIDLIPEEERKRKI 142


                  ....*....
gi 1958803004 180 RQLERVLKQ 188
Cdd:cd01889   143 EKMKKRLQK 151
SelB_II cd03696
Domain II of elongation factor SelB; This subfamily represents the domain of elongation factor ...
 262-341 2.96e-08

Domain II of elongation factor SelB; This subfamily represents the domain of elongation factor SelB that is homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.


Pssm-ID: 293897 [Multi-domain]  Cd Length: 83  Bit Score: 50.60  E-value: 2.96e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 262 VDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDdgcfLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLRKGMV 341
Cdd:cd03696     5 IDHVFSIKGAGTVVTGTVLSGKVKVGDELEIPPLG----KEVRVRSIQVHDKPVEEAKAGDRVALNLTGVDAKELERGFV 80
IF2_eIF5B cd01887
Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B ...
 24-182 2.01e-06

Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.


Pssm-ID: 206674 [Multi-domain]  Cd Length: 169  Bit Score: 47.85  E-value: 2.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTqgELDNGRGRARlnlfrhlheiqsGRTSSI-SFEIlgfnskgevvnysdsrtaeEIcESSS 102
Cdd:cd01887     3 VTVMGHVDHGKTTLLDKIR--KTNVAAGEAG------------GITQHIgAYQV-------------------PI-DVKI 48

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 103 KMITFIDLAGHHKYLHTTIFG--LTsycpDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLCAKTT--VERT 178
Cdd:cd01887    49 PGITFIDTPGHEAFTNMRARGasVT----DIAILVVAADDGVMPQTIEAINHAKAANVPIIVAINKIDKPYGTEadPERV 124


                  ....
gi 1958803004 179 VRQL 182
Cdd:cd01887   125 KNEL 128
EF-G_bact cd04170
Elongation factor G (EF-G) family; Translocation is mediated by EF-G (also called translocase). ...
 24-189 5.64e-06

Elongation factor G (EF-G) family; Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group contains only bacterial members.


Pssm-ID: 206733 [Multi-domain]  Cd Length: 268  Bit Score: 47.59  E-value: 5.64e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLL-------GVLT-QGELDNGrgrarlNLFRHLHEIQSGRTSSISFEILGFNSKGevvnysdsrtae 95
Cdd:cd04170     2 IALVGHSGSGKTTLAeallyatGAIDrLGRVEDG------NTVSDYDPEEKKRKMSIETSVAPLEWNG------------ 63

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  96 eicesssKMITFIDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLcAKTTV 175
Cdd:cd04170    64 -------HKINLIDTPGYADFVGETLSALRAV--DAALIVVEAQSGVEVGTEKVWEFLDDAKLPRIIFINKMDR-ARADF 133

                         170
                  ....*....|....
gi 1958803004 176 ERTVRQLERVLKQP 189
Cdd:cd04170   134 DKTLAALREAFGRP 147
EF1_alpha cd01883
Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent ...
 24-169 8.05e-06

Elongation Factor 1-alpha (EF1-alpha) protein family; EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in yeast, and to associate with Dom34. It has been speculated that yeast Hbs1 and Dom34 proteins may function as part of a complex with a role in gene expression.


Pssm-ID: 206670 [Multi-domain]  Cd Length: 219  Bit Score: 46.72  E-value: 8.05e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTQ--GELDNgrgrarlnlfRHLHEI-----QSGRTSsisFEilgfnskgevvnYS---DSRT 93
Cdd:cd01883     2 LVVIGHVDAGKSTLTGHLLYklGGVDK----------RTIEKYekeakEMGKES---FK------------YAwvlDKLK 56

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  94 AE-------EIC----ESSSKMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTG-------IAGTTREHLGLALA 155
Cdd:cd01883    57 EErergvtiDVGlakfETEKYRFTIIDAPGHRDFVKNMITGASQ--ADVAVLVVSARKGefeagfeKGGQTREHALLART 134

                         170
                  ....*....|....*
gi 1958803004 156 LKVPFFIV-VSKVDL 169
Cdd:cd01883   135 LGVKQLIVaVNKMDD 149
infB CHL00189
translation initiation factor 2; Provisional
 24-182 1.25e-05

translation initiation factor 2; Provisional


Pssm-ID: 177089 [Multi-domain]  Cd Length: 742  Bit Score: 47.52  E-value: 1.25e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004  24 VAVLGNVDSGKSTLLGVLTQGELDNgrgrarlnlfrhlHEIqSGRTSSI-SFEilgfnskgevVNYsdsrtaeeICESSS 102
Cdd:CHL00189  247 VTILGHVDHGKTTLLDKIRKTQIAQ-------------KEA-GGITQKIgAYE----------VEF--------EYKDEN 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 103 KMITFIDLAGHHKYLHTTIFGLTSycPDCALLLVSANTGIAGTTREHLGLALALKVPFFIVVSKVDLcAKTTVERTVRQL 182
Cdd:CHL00189  295 QKIVFLDTPGHEAFSSMRSRGANV--TDIAILIIAADDGVKPQTIEAINYIQAANVPIIVAINKIDK-ANANTERIKQQL 371
GTP_EFTU_D2 pfam03144
Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this ...
 272-343 2.61e-05

Elongation factor Tu domain 2; Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to pfam03143, and in fact has weak sequence matches to this domain.


Pssm-ID: 427163 [Multi-domain]  Cd Length: 73  Bit Score: 42.25  E-value: 2.61e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958803004 272 GTVVGGTLSSGICREGDQLVVGPTD-DGCFLELRVCSIQRNRSACRVLRAGQAATLALGDFDRALLRKGMVMV 343
Cdd:pfam03144   1 GTVATGRVESGTLKKGDKVRILPNGtGKKKIVTRVTSLLMFHAPLREAVAGDNAGLILAGVGLEDIRVGDTLT 73
Translation_Factor_II_like cd01342
Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of ...
 260-341 1.01e-04

Domain II of Elongation factor Tu (EF-Tu)-like proteins; Elongation factor Tu consists of three structural domains. Domain II adopts a beta barrel structure and is involved in binding to charged tRNA. Domain II is found in other proteins such as elongation factor G and translation initiation factor IF-2. This group also includes the C2 subdomain of domain IV of IF-2 that has the same fold as domain II of (EF-Tu). Like IF-2 from certain prokaryotes such as Thermus thermophilus, mitochondrial IF-2 lacks domain II, which is thought to be involved in binding of E. coli IF-2 to 30S subunits.


Pssm-ID: 293888 [Multi-domain]  Cd Length: 80  Bit Score: 40.71  E-value: 1.01e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 260 FQVDEIYTVPEVGTVVGGTLSSGICREGDQLVVGPTDDGcfleLRVCSIQRNRSACRVLRAGQAATLA-LGDFDralLRK 338
Cdd:cd01342     3 MQVFKVFYIPGRGRVAGGRVESGTLKVGDEIRILPKGIT----GRVTSIERFHEEVDEAKAGDIVGIGiLGVKD---ILT 75


                  ...
gi 1958803004 339 GMV 341
Cdd:cd01342    76 GDT 78
EF_Tu cd01884
Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes ...
 108-182 1.05e-04

Elongation Factor Tu (EF-Tu) GTP-binding proteins; EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.


Pssm-ID: 206671 [Multi-domain]  Cd Length: 195  Bit Score: 42.96  E-value: 1.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 108 IDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVPFFIV-VSKVDLCAKTT----VERTVRQL 182
Cdd:cd01884    70 VDCPGHADYIKNMITGAAQM--DGAILVVSATDGPMPQTREHLLLARQVGVPYIVVfLNKADMVDDEEllelVEMEVREL 147
tufA CHL00071
elongation factor Tu
 108-288 1.48e-03

elongation factor Tu


Pssm-ID: 177010 [Multi-domain]  Cd Length: 409  Bit Score: 40.71  E-value: 1.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 108 IDLAGHHKYLHTTIFGLTSYcpDCALLLVSANTGIAGTTREHLGLALALKVPFFIV-VSKVDLCAKTT----VERTVRQL 182
Cdd:CHL00071   80 VDCPGHADYVKNMITGAAQM--DGAILVVSAADGPMPQTKEHILLAKQVGVPNIVVfLNKEDQVDDEEllelVELEVREL 157

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 183 ERVLKQPGcHKVPMLVTSeddAVTAAQQFAQSPNVTP--------IFTLSsvsgESLDllkvflNILPPLTNSKEQEELM 254
Cdd:CHL00071  158 LSKYDFPG-DDIPIVSGS---ALLALEALTENPKIKRgenkwvdkIYNLM----DAVD------SYIPTPERDTDKPFLM 223

                         170       180       190
                  ....*....|....*....|....*....|....
gi 1958803004 255 qqltefQVDEIYTVPEVGTVVGGTLSSGICREGD 288
Cdd:CHL00071  224 ------AIEDVFSITGRGTVATGRIERGTVKVGD 251
HBS1_C_III cd04093
C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1); This model represents the ...
 351-409 5.69e-03

C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1); This model represents the C-terminal domain of Hsp70 subfamily B suppressor 1 (HBS1), which is homologous to the domain III of EF-1alpha. This group contains proteins similar to yeast Hbs1, which together with Dom34, promotes the No-go decay (NGD) of mRNA. The NGD targets mRNAs whose elongation stalled for degradation initiated by endonucleolytic cleavage in the vicinity of the stalled ribosome.


Pssm-ID: 294008 [Multi-domain]  Cd Length: 109  Bit Score: 36.37  E-value: 5.69e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1958803004 351 ICSVFEAEIVLLFHATTFRRGFQVTVHVGNVRQTAVVEKIHAKDKLRTGEKAVVRFRFL 409
Cdd:cd04093     4 TTSKFEARIVTFDLQVPILKGTPVVLHRHSLSEPATISKLVSTLDKSTGEVIKKKPRCL 62
PRK05506 PRK05506
bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
 277-360 8.33e-03

bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional


Pssm-ID: 180120 [Multi-domain]  Cd Length: 632  Bit Score: 38.76  E-value: 8.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958803004 277 GTLSSGICREGDQLVVGPTddGCflELRVCSIQRNRSACRVLRAGQAATLALGD-FDralLRKGMVMVSPEMNPTICSVF 355
Cdd:PRK05506  261 GTVASGVVRPGDEVVVLPS--GK--TSRVKRIVTPDGDLDEAFAGQAVTLTLADeID---ISRGDMLARADNRPEVADQF 333


                  ....*
gi 1958803004 356 EAEIV 360
Cdd:PRK05506  334 DATVV 338
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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