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Conserved domains on  [gi|17552206|ref|NP_498394|]
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Transcriptional repressor NF-X1 homolog [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
R3H super family cl00297
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 860-935 2.96e-30

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


The actual alignment was detected with superfamily member cd02643:

Pssm-ID: 469711  Cd Length: 74  Bit Score: 114.38  E-value: 2.96e-30
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17552206  860 KEMVRTNIDFVKSVEKILIDLVIQILSGeaYHDTFRAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLTA 935
Cdd:cd02643    1 KNMAKKDPKFVKDVEKDLIELVESVNKG--KQTSRSHSFPPMNREKRRIVHELAEHFGIESVSYDQEPKRNVVATA 74
RING_Ubox super family cl17238
RING finger (Really Interesting New Gene) domain and U-box domain superfamily; The RING finger ...
 233-287 1.29e-13

RING finger (Really Interesting New Gene) domain and U-box domain superfamily; The RING finger is a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc. It is defined by the "cross-brace" motif that chelates zinc atoms by eight amino acid residues, typically Cys or His, arranged in a characteristic spacing. Canonical RING motifs have been categorized into two major subclasses, RING-HC (C3HC4-type) and RING-H2 (C3H2C3-type), according to their Cys/His content. There are also many variants of RING fingers: some have different Cys/His patterns while some lack a single Cys or His residue at typical Zn ligand positions (the fourth or eighth zinc ligand is prevalently exchanged for an Asp, which can indeed chelate Zn in a RING finger as well). C4C4-, C3HC3D-, C2H2C4-, and C3HC5-type RING fingers are closely related to RING-HC fingers. In contrast, C4HC3- (RING-CH alias RINGv), C3H3C2-, C3H2C2D-, C3DHC3-, and C4HC2H-type RING fingers are more closely related to RING-H2 fingers. However, not all RING finger-containing proteins display regular RING finger features, and the RING finger family has turned out to be multifarious. The degenerate RING fingers of the Siz/PIAS RING (SP-RING) family proteins and sporulation protein RMD5, are characterized by lacking the second, fifth, and sixth Zn2+ ion-coordinating residues. They bind only one Zn2+ ion. On the other hand, the RING fingers of the human APC11 and RBX1 proteins can bind a third Zn atom since they harbor four additional Zn ligands. U-box is a modified form of the RING finger domain that lacks metal chelating Cys and His residues. It resembles the cross-brace RING structure consisting of three beta-sheets and a single alpha-helix, which would be stabilized by salt bridges instead of chelated metal ions. U-box proteins are widely distributed among eukaryotic organisms and show a higher prevalence in plants than in other organisms. RING finger/U-box-containing proteins are a group of diverse proteins with a variety of cellular functions, including oncogenesis, development, viral replication, signal transduction, the cell cycle and apoptosis. Many of them are ubiquitin-protein ligases (E3s) that serve as scaffolds for binding to ubiquitin-conjugating enzymes (E2s, also referred to as ubiquitin carrier proteins or UBCs) in close proximity to substrate proteins, which enable efficient transfer of ubiquitin from E2 to the substrates.


The actual alignment was detected with superfamily member cd16696:

Pssm-ID: 473075 [Multi-domain]  Cd Length: 55  Bit Score: 66.30  E-value: 1.29e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 17552206  233 YECAICYTRITTRQGVWSCKTCYHIFHIstGCITDWARS--SRDKEGANTWRCPTCQ 287
Cdd:cd16696    1 YECMVCCEVVRVMAPVWSCSSCYHVFHL--NCIKKWARSpaAQAEDNSGGWRCPACQ 55
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 373-419 3.06e-13

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 65.06  E-value: 3.06e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 17552206  373 CETVCGKQLSCGQHNCERICHSGDCGECTVILEQDCFCGKTPKEVSC 419
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPC 47
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 490-542 6.70e-10

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 55.43  E-value: 6.70e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  490 CDSVCDKWLTCGtpgkNHHCREKCHEGPCPPCNLNTSVICRCGTSKGVIPCDE 542
Cdd:cd06008    1 CGEVCGKPLPCG----NHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 582-634 1.85e-09

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 54.27  E-value: 1.85e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  582 CLQMCNKRLSCGIHTCENVCHAGQCRPCLQASfdEQFCHCGHTVRmpPIPCGA 634
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETV--KKKCRCGKTTK--EVPCGE 49
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 318-367 5.28e-08

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 50.04  E-value: 5.28e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 17552206  318 CGETCGgaRKFGCP-HPCTELCHPGPCIECKLFTTKSCNCGKTKKSVRCGS 367
Cdd:cd06008    1 CGEVCG--KPLPCGnHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
PRK12678 super family cl36163
transcription termination factor Rho; Provisional
 7-205 1.18e-06

transcription termination factor Rho; Provisional


The actual alignment was detected with superfamily member PRK12678:

Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 52.60  E-value: 1.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     7 TSSSIPTSTNSSRHRASRGRGGRFRQAPRQVGANTADNLDAAPLMNPRGGHRGGSGNKRGRGQKEATSASRLQMQPEAnf 86
Cdd:PRK12678   68 ATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKA-- 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206    87 tfnpnaatfnpaqsvlfDPSVPPPTIGASTHSNQNSRQQEPSQNRRRRGGQQNTQRRQLEIQEQRGDSHPQNQSRQNNRN 166
Cdd:PRK12678  146 -----------------GEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDR 208

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 17552206   167 QLNVDRiANQQNKSVQNPSRNPGNSRRGQGARRREQKEE 205
Cdd:PRK12678  209 REQGDR-REERGRRDGGDRRGRRRRRDRRDARGDDNRED 246
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 429-472 4.49e-06

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 44.64  E-value: 4.49e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 17552206  429 CGSECDGMFSCGIHHCTKKCHDKECGECETGANriRTCPCGRNT 472
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVK--KKCRCGKTT 42
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 693-740 2.60e-04

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


:

Pssm-ID: 100116  Cd Length: 49  Bit Score: 39.64  E-value: 2.60e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 17552206  693 CGVVCKKPLKCGVHVCQRTCHGEECEKEGEKCTKKCETIRELCEHPCA 740
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCG 48
 
Name Accession Description Interval E-value
R3H_NF-X1 cd02643
R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a ...
 860-935 2.96e-30

R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100072  Cd Length: 74  Bit Score: 114.38  E-value: 2.96e-30
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17552206  860 KEMVRTNIDFVKSVEKILIDLVIQILSGeaYHDTFRAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLTA 935
Cdd:cd02643    1 KNMAKKDPKFVKDVEKDLIELVESVNKG--KQTSRSHSFPPMNREKRRIVHELAEHFGIESVSYDQEPKRNVVATA 74
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
857-936 4.98e-17

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 76.57  E-value: 4.98e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     857 CYLKEMVRTNIDFVKSvEKILIDLVIQILSgEAYHDTFRAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLTAV 936
Cdd:smart00393    2 DFLPVTLDALSYRPRR-REELIELELEIAR-FVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79
RING-CH-C4HC3_NFX1 cd16696
RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1 and similar ...
 233-287 1.29e-13

RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1 and similar proteins; NF-X1, also known as nuclear transcription factor, X box-binding protein 1, is a novel cysteine-rich sequence-specific DNA-binding protein that interacts with the conserved X-box motif of the human major histocompatibility complex (MHC) class II genes via a repeated Cys-His domain. It functions as a cytokine-inducible transcriptional repressor that plays an important role in regulating the duration of an inflammatory response by limiting the period in which class II MHC molecules are induced by interferon gamma (IFN- gamma). NFX1 contains an N-terminal PAM2 motif, a C4HC3-type RING-CH finger, a Cys-rich region that harbors several NFX1-type zinc fingers, and a C-terminal R3H domain.


Pssm-ID: 438357 [Multi-domain]  Cd Length: 55  Bit Score: 66.30  E-value: 1.29e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 17552206  233 YECAICYTRITTRQGVWSCKTCYHIFHIstGCITDWARS--SRDKEGANTWRCPTCQ 287
Cdd:cd16696    1 YECMVCCEVVRVMAPVWSCSSCYHVFHL--NCIKKWARSpaAQAEDNSGGWRCPACQ 55
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 373-419 3.06e-13

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 65.06  E-value: 3.06e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 17552206  373 CETVCGKQLSCGQHNCERICHSGDCGECTVILEQDCFCGKTPKEVSC 419
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPC 47
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 490-542 6.70e-10

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 55.43  E-value: 6.70e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  490 CDSVCDKWLTCGtpgkNHHCREKCHEGPCPPCNLNTSVICRCGTSKGVIPCDE 542
Cdd:cd06008    1 CGEVCGKPLPCG----NHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 868-934 7.88e-10

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 55.58  E-value: 7.88e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17552206    868 DFVKSVEKILIDLVIQilSGEAYHdtfrahLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLT 934
Cdd:pfam01424    1 EFLEQLAEKLAEFVKD--TGKSLE------LPPMSSYERRIIHELAQKYGLESESEGEEPNRRVVVY 59
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 582-634 1.85e-09

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 54.27  E-value: 1.85e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  582 CLQMCNKRLSCGIHTCENVCHAGQCRPCLQASfdEQFCHCGHTVRmpPIPCGA 634
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETV--KKKCRCGKTTK--EVPCGE 49
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 318-367 5.28e-08

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 50.04  E-value: 5.28e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 17552206  318 CGETCGgaRKFGCP-HPCTELCHPGPCIECKLFTTKSCNCGKTKKSVRCGS 367
Cdd:cd06008    1 CGEVCG--KPLPCGnHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 7-205 1.18e-06

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 52.60  E-value: 1.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     7 TSSSIPTSTNSSRHRASRGRGGRFRQAPRQVGANTADNLDAAPLMNPRGGHRGGSGNKRGRGQKEATSASRLQMQPEAnf 86
Cdd:PRK12678   68 ATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKA-- 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206    87 tfnpnaatfnpaqsvlfDPSVPPPTIGASTHSNQNSRQQEPSQNRRRRGGQQNTQRRQLEIQEQRGDSHPQNQSRQNNRN 166
Cdd:PRK12678  146 -----------------GEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDR 208

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 17552206   167 QLNVDRiANQQNKSVQNPSRNPGNSRRGQGARRREQKEE 205
Cdd:PRK12678  209 REQGDR-REERGRRDGGDRRGRRRRRDRRDARGDDNRED 246
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 429-472 4.49e-06

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 44.64  E-value: 4.49e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 17552206  429 CGSECDGMFSCGIHHCTKKCHDKECGECETGANriRTCPCGRNT 472
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVK--KKCRCGKTT 42
COG5219 COG5219
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
234-289 9.81e-05

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


Pssm-ID: 227544 [Multi-domain]  Cd Length: 1525  Bit Score: 46.59  E-value: 9.81e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17552206  234 ECAICYTRITTRQGVW---SCKTCYHIFHisTGCITDWARSSrdkegaNTWRCPTCQTE 289
Cdd:COG5219 1471 ECAICYSVLDMVDRSLpskRCATCKNKFH--TRCLYKWFASS------ARSNCPLCRSE 1521
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 693-740 2.60e-04

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 39.64  E-value: 2.60e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 17552206  693 CGVVCKKPLKCGVHVCQRTCHGEECEKEGEKCTKKCETIRELCEHPCA 740
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCG 48
zf-NF-X1 pfam01422
NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following ...
 592-610 2.58e-03

NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA.


Pssm-ID: 460205  Cd Length: 19  Bit Score: 36.35  E-value: 2.58e-03
                           10
                   ....*....|....*....
gi 17552206    592 CGIHTCENVCHAGQCRPCL 610
Cdd:pfam01422    1 CGNHTCEEVCHEGPCPPCP 19
zf-NF-X1 pfam01422
NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following ...
 383-401 9.59e-03

NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA.


Pssm-ID: 460205  Cd Length: 19  Bit Score: 34.43  E-value: 9.59e-03
                           10
                   ....*....|....*....
gi 17552206    383 CGQHNCERICHSGDCGECT 401
Cdd:pfam01422    1 CGNHTCEEVCHEGPCPPCP 19
 
Name Accession Description Interval E-value
R3H_NF-X1 cd02643
R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a ...
 860-935 2.96e-30

R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100072  Cd Length: 74  Bit Score: 114.38  E-value: 2.96e-30
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 17552206  860 KEMVRTNIDFVKSVEKILIDLVIQILSGeaYHDTFRAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLTA 935
Cdd:cd02643    1 KNMAKKDPKFVKDVEKDLIELVESVNKG--KQTSRSHSFPPMNREKRRIVHELAEHFGIESVSYDQEPKRNVVATA 74
R3H smart00393
Putative single-stranded nucleic acids-binding domain;
857-936 4.98e-17

Putative single-stranded nucleic acids-binding domain;


Pssm-ID: 214647  Cd Length: 79  Bit Score: 76.57  E-value: 4.98e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     857 CYLKEMVRTNIDFVKSvEKILIDLVIQILSgEAYHDTFRAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLTAV 936
Cdd:smart00393    2 DFLPVTLDALSYRPRR-REELIELELEIAR-FVKSTKESVELPPMNSYERKIVHELAEKYGLESESFGEGPKRRVVISKK 79
RING-CH-C4HC3_NFX1 cd16696
RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1 and similar ...
 233-287 1.29e-13

RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1 and similar proteins; NF-X1, also known as nuclear transcription factor, X box-binding protein 1, is a novel cysteine-rich sequence-specific DNA-binding protein that interacts with the conserved X-box motif of the human major histocompatibility complex (MHC) class II genes via a repeated Cys-His domain. It functions as a cytokine-inducible transcriptional repressor that plays an important role in regulating the duration of an inflammatory response by limiting the period in which class II MHC molecules are induced by interferon gamma (IFN- gamma). NFX1 contains an N-terminal PAM2 motif, a C4HC3-type RING-CH finger, a Cys-rich region that harbors several NFX1-type zinc fingers, and a C-terminal R3H domain.


Pssm-ID: 438357 [Multi-domain]  Cd Length: 55  Bit Score: 66.30  E-value: 1.29e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 17552206  233 YECAICYTRITTRQGVWSCKTCYHIFHIstGCITDWARS--SRDKEGANTWRCPTCQ 287
Cdd:cd16696    1 YECMVCCEVVRVMAPVWSCSSCYHVFHL--NCIKKWARSpaAQAEDNSGGWRCPACQ 55
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 373-419 3.06e-13

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 65.06  E-value: 3.06e-13
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 17552206  373 CETVCGKQLSCGQHNCERICHSGDCGECTVILEQDCFCGKTPKEVSC 419
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPC 47
RING-CH-C4HC3_NFX1-like cd16492
RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1, NF-X1-type ...
 233-287 3.14e-12

RING-CH finger, H2 subclass (C4HC3-type), found in transcriptional repressor NF-X1, NF-X1-type zinc finger protein NFXL1, and similar proteins; NF-X1, also known as nuclear transcription factor, X box-binding protein 1, is a novel cysteine-rich sequence-specific DNA-binding protein that interacts with the conserved X-box motif of the human major histocompatibility complex (MHC) class II genes via a repeated Cys-His domain. It functions as a cytokine-inducible transcriptional repressor that plays an important role in regulating the duration of an inflammatory response by limiting the period in which class II MHC molecules are induced by interferon gamma (IFN- gamma). NFXL1, also known as NF-X1-type zinc finger protein NFXL1 or ovarian zinc finger protein (OZFP), is encoded by a novel human cytoplasm-distribution zinc finger protein (CDZFP) gene. This subfamily also includes NF-X1 homologs from insects, plants, and fungi. Drosophila melanogaster shuttle craft (STC) is a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system. It functions as a putative transcription factor and plays an essential role in the completion of embryonic development. In contrast to NF-X1, STC contains an RD domain. The Arabidopsis genome encodes two NF-X1 homologs, AtNFXL1 and AtNFXL2, both of which function as regulators of salt stress responses. The AtNFXL1 protein is a nuclear factor that positively affects adaptation to salt stress. It also functions as a negative regulator of the type A trichothecene phytotoxin-induced defense response. AtNFXL2 controls abscisic acid (ABA) levels and suppresses ABA responses. It may also prevent unnecessary and costly stress adaptation under favorable conditions. FKBP12-associated protein 1 (FAP1) is a dosage suppressor of rapamycin toxicity in budding yeast. It is localized in the cytoplasm, but upon rapamycin treatment translocates to the nucleus. FAP1 interacts with FKBP12 in a rapamycin-sensitive manner. It is a proline-rich protein containing a novel cysteine-rich DNA-binding motif. Unique structural features of the NFX1 and NFXL proteins are the Cys-rich region and a specific RING-CH finger motif with an unusual arrangement of zinc-coordinating residues. The Cys-rich region is required for binding to specific promoter elements. It frequently comprises more than 500 amino acids and harbors several NFX1-type zinc finger domains, characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The RING-CH finger, also known as vRING or RINGv, may have E3 ligase activity. It is characterized by a C4HC3-type Zn ligand signature and additional conserved amino acids, rather than the C3H2C3-type cysteines and histidines arrangement in canonical RING-H2 finger. In addition to the Cys-rich region and RING-CH finger, NFX1 contains a PAM2 motif in the N-terminus and a R3H domain in the C-terminus.


Pssm-ID: 438155 [Multi-domain]  Cd Length: 58  Bit Score: 62.46  E-value: 3.14e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206  233 YECAICYTRITTRQGVWSCKTCYHIFHIStgCITDWARSS-----RDKEGANTWRCPTCQ 287
Cdd:cd16492    1 YECMICTENVGRNQSIWSCSRCYRVFHLS--CIKKWAKNSeekaeQVKNDDDSWRCPGCQ 58
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 490-542 6.70e-10

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 55.43  E-value: 6.70e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  490 CDSVCDKWLTCGtpgkNHHCREKCHEGPCPPCNLNTSVICRCGTSKGVIPCDE 542
Cdd:cd06008    1 CGEVCGKPLPCG----NHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
R3H pfam01424
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ...
 868-934 7.88e-10

R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA.


Pssm-ID: 460206  Cd Length: 60  Bit Score: 55.58  E-value: 7.88e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17552206    868 DFVKSVEKILIDLVIQilSGEAYHdtfrahLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLT 934
Cdd:pfam01424    1 EFLEQLAEKLAEFVKD--TGKSLE------LPPMSSYERRIIHELAQKYGLESESEGEEPNRRVVVY 59
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 582-634 1.85e-09

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 54.27  E-value: 1.85e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 17552206  582 CLQMCNKRLSCGIHTCENVCHAGQCRPCLQASfdEQFCHCGHTVRmpPIPCGA 634
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETV--KKKCRCGKTTK--EVPCGE 49
R3H cd02325
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ...
 870-934 5.35e-09

R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100064  Cd Length: 59  Bit Score: 53.39  E-value: 5.35e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 17552206  870 VKSVEKILIDLVIQiLSGEAYHdtfrahLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSIVLT 934
Cdd:cd02325    1 REEREEELEAFAKD-AAGKSLE------LPPMNSYERKLIHDLAEYYGLKSESEGEGPNRRVVIT 58
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 318-367 5.28e-08

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 50.04  E-value: 5.28e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 17552206  318 CGETCGgaRKFGCP-HPCTELCHPGPCIECKLFTTKSCNCGKTKKSVRCGS 367
Cdd:cd06008    1 CGEVCG--KPLPCGnHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCGE 49
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 7-205 1.18e-06

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 52.60  E-value: 1.18e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     7 TSSSIPTSTNSSRHRASRGRGGRFRQAPRQVGANTADNLDAAPLMNPRGGHRGGSGNKRGRGQKEATSASRLQMQPEAnf 86
Cdd:PRK12678   68 ATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKA-- 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206    87 tfnpnaatfnpaqsvlfDPSVPPPTIGASTHSNQNSRQQEPSQNRRRRGGQQNTQRRQLEIQEQRGDSHPQNQSRQNNRN 166
Cdd:PRK12678  146 -----------------GEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDR 208

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 17552206   167 QLNVDRiANQQNKSVQNPSRNPGNSRRGQGARRREQKEE 205
Cdd:PRK12678  209 REQGDR-REERGRRDGGDRRGRRRRRDRRDARGDDNRED 246
PRK12678 PRK12678
transcription termination factor Rho; Provisional
 2-203 1.39e-06

transcription termination factor Rho; Provisional


Pssm-ID: 237171 [Multi-domain]  Cd Length: 672  Bit Score: 52.60  E-value: 1.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206     2 ADTEGTSSSIPTSTNSSRHRASRGRGGRFRQAPRQVGANTADNLDAAPLMNPRGGHRGGSGNKRGRGQKEATSASRLQMQ 81
Cdd:PRK12678   75 AAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGGEQPAT 154

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206    82 PEANFTFNPNAATFNPAQSVLFDPSVPPPTIGASTHSNQNSRQQEPSQNRRRRGGQQNTQRRQleiQEQRGDSHPQNQSR 161
Cdd:PRK12678  155 EARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREE---RGRRDGGDRRGRRR 231

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 17552206   162 QNNRNQLNvDRIANQQNKSVQNPSRNPGNSRRGQGARRREQK 203
Cdd:PRK12678  232 RRDRRDAR-GDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRR 272
R3H_unknown_2 cd06006
R3H domain of a group of fungal proteins with unknown function. The name of the R3H domain ...
 895-931 3.16e-06

R3H domain of a group of fungal proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.


Pssm-ID: 100076  Cd Length: 59  Bit Score: 45.44  E-value: 3.16e-06
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 17552206  895 RAHLPAMSIEKRRFVHEYANFFNIASESVDSPPKRSI 931
Cdd:cd06006   19 SLRFPPMRSPQRAFIHELAKDYGLYSESQDPEPKRSV 55
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 429-472 4.49e-06

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 44.64  E-value: 4.49e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 17552206  429 CGSECDGMFSCGIHHCTKKCHDKECGECETGANriRTCPCGRNT 472
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVK--KKCRCGKTT 42
RING-CH-C4HC3_NFXL1 cd16697
RING-CH finger, H2 subclass (C4HC3-type), found in nuclear transcription factor, X-box ...
 234-286 1.01e-05

RING-CH finger, H2 subclass (C4HC3-type), found in nuclear transcription factor, X-box binding-like 1 (NFXL1) and similar proteins; NFXL1, also known as NF-X1-type zinc finger protein NFXL1, or ovarian zinc finger protein (OZFP), is encoded by the novel human cytoplasm-distribution zinc finger protein (CDZFP) gene. It is a putative zinc finger protein with a C4HC3-type RING-CH finger and a Cys-rich region that harbors several NFX1-type zinc fingers.


Pssm-ID: 438358  Cd Length: 63  Bit Score: 44.26  E-value: 1.01e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 17552206  234 ECAICYTRITTRQGVWSCKTCYHIFHIStgCITDWARSSRDKEGANT----------WRCPTC 286
Cdd:cd16697    2 TCLICIESIKRNDAIWSCSGCFCIFHLP--CIQKWAKDSIFLVSLRSasdfpqkelpWHCPKC 62
COG5219 COG5219
Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];
234-289 9.81e-05

Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only];


Pssm-ID: 227544 [Multi-domain]  Cd Length: 1525  Bit Score: 46.59  E-value: 9.81e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 17552206  234 ECAICYTRITTRQGVW---SCKTCYHIFHisTGCITDWARSSrdkegaNTWRCPTCQTE 289
Cdd:COG5219 1471 ECAICYSVLDMVDRSLpskRCATCKNKFH--TRCLYKWFASS------ARSNCPLCRSE 1521
NF-X1-zinc-finger cd06008
Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear ...
 693-740 2.60e-04

Presumably a zinc binding domain, which has been shown to bind to DNA in the human nuclear transcriptional repressor NF-X1. The zinc finger can be characterized by the pattern C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C. The NF-X1 zinc finger co-occurs with atypical RING-finger and R3H domains. Human NF-X1 is involved in the transcriptional repression of major histocompatibility complex class II genes. The drosophila homolog encoded by stc (shuttle craft) plays a role in embryonic development, and the Arabidopsis homologue AtNFXL1 has been shown to function in the response to trichothecene and other defense mechanisms.


Pssm-ID: 100116  Cd Length: 49  Bit Score: 39.64  E-value: 2.60e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 17552206  693 CGVVCKKPLKCGVHVCQRTCHGEECEKEGEKCTKKCETIRELCEHPCA 740
Cdd:cd06008    1 CGEVCGKPLPCGNHKCEQLCHEGPCPPCPETVKKKCRCGKTTKEVPCG 48
rne PRK10811
ribonuclease E; Reviewed
 119-215 9.24e-04

ribonuclease E; Reviewed


Pssm-ID: 236766 [Multi-domain]  Cd Length: 1068  Bit Score: 43.49  E-value: 9.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17552206   119 NQNSRQQE---PSQNRRR-RGGQQNTQ--RRQLEIQEQRGDshpqnQSRQNNRNQLNVDR-------IANQQNKSVQNPS 185
Cdd:PRK10811  598 AKPERQQDrrkPRQNNRRdRNERRDTRdnRTRREGRENREE-----NRRNRRQAQQQTAEtresqqaEVTEKARTQDEQQ 672

                          90       100       110
                  ....*....|....*....|....*....|
gi 17552206   186 RNPGNSRrgqgaRRREQKEEPLTEEETKIL 215
Cdd:PRK10811  673 QAPRRER-----QRRRNDEKRQAQQEAKAL 697
zf-NF-X1 pfam01422
NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following ...
 592-610 2.58e-03

NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA.


Pssm-ID: 460205  Cd Length: 19  Bit Score: 36.35  E-value: 2.58e-03
                           10
                   ....*....|....*....
gi 17552206    592 CGIHTCENVCHAGQCRPCL 610
Cdd:pfam01422    1 CGNHTCEEVCHEGPCPPCP 19
zf-NF-X1 pfam01422
NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following ...
 383-401 9.59e-03

NF-X1 type zinc finger; This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA.


Pssm-ID: 460205  Cd Length: 19  Bit Score: 34.43  E-value: 9.59e-03
                           10
                   ....*....|....*....
gi 17552206    383 CGQHNCERICHSGDCGECT 401
Cdd:pfam01422    1 CGNHTCEEVCHEGPCPPCP 19
 
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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