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Conserved domains on  [gi|15235319|ref|NP_192140|]
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Galactose oxidase/kelch repeat superfamily protein [Arabidopsis thaliana]

Protein Classification

F-box/kelch-repeat protein( domain architecture ID 17778853)

F-box/kelch-repeat protein may be a component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
12-56 6.15e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, is a component of SCF (SKP1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


:

Pssm-ID: 438923  Cd Length: 45  Bit Score: 67.98  E-value: 6.15e-15
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15235319  12 LFSLLPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKITR 56
Cdd:cd22152   1 LIPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPELFRVR 45
NanM super family cl34543
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
104-251 1.81e-09

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


The actual alignment was detected with superfamily member COG3055:

Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 57.86  E-value: 1.81e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 104 YFATLTLGPEIYFVGK------SRSMWILDSRSGKLRQGPR-PLVACDQAAVGLVNDKIYVFGGIDDMNKRYYEGIHAQV 176
Cdd:COG3055  15 EAAAALLDGKVYVAGGlsggsaSNSFEVYDPATNTWSELAPlPGPPRHHAAAVAQDGKLYVFGGFTGANPSSTPLNDVYV 94
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 177 FDLKTQTWHVGPNLSVKLAclnrSVVTPSLGRKIYVRG------TDRDVTIYDIKDGKCDKIIPA----DDFSSGdmCVV 246
Cdd:COG3055  95 YDPATNTWTKLAPMPTPRG----GATALLLDGKIYVVGgwddggNVAWVEVYDPATGTWTQLAPLptprDHLAAA--VLP 168

                ....*
gi 15235319 247 DNVIY 251
Cdd:COG3055 169 DGKIL 173
 
Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
12-56 6.15e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, is a component of SCF (SKP1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438923  Cd Length: 45  Bit Score: 67.98  E-value: 6.15e-15
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15235319  12 LFSLLPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKITR 56
Cdd:cd22152   1 LIPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPELFRVR 45
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
104-251 1.81e-09

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 57.86  E-value: 1.81e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 104 YFATLTLGPEIYFVGK------SRSMWILDSRSGKLRQGPR-PLVACDQAAVGLVNDKIYVFGGIDDMNKRYYEGIHAQV 176
Cdd:COG3055  15 EAAAALLDGKVYVAGGlsggsaSNSFEVYDPATNTWSELAPlPGPPRHHAAAVAQDGKLYVFGGFTGANPSSTPLNDVYV 94
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 177 FDLKTQTWHVGPNLSVKLAclnrSVVTPSLGRKIYVRG------TDRDVTIYDIKDGKCDKIIPA----DDFSSGdmCVV 246
Cdd:COG3055  95 YDPATNTWTKLAPMPTPRG----GATALLLDGKIYVVGgwddggNVAWVEVYDPATGTWTQLAPLptprDHLAAA--VLP 168

                ....*
gi 15235319 247 DNVIY 251
Cdd:COG3055 169 DGKIL 173
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
13-55 1.61e-07

F-box domain; This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 425796  Cd Length: 43  Bit Score: 47.15  E-value: 1.61e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15235319    13 FSLLPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKIT 55
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
FBOX smart00256
A Receptor for Ubiquitination Targets;
16-56 8.74e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 42.04  E-value: 8.74e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 15235319     16 LPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKITR 56
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFWFKL 41
PLN02153 PLN02153
epithiospecifier protein
124-214 5.33e-05

epithiospecifier protein


Pssm-ID: 177814 [Multi-domain]  Cd Length: 341  Bit Score: 44.59  E-value: 5.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319  124 WI-LDSRSGKlrqGPRPLVACDQAAVGlvnDKIYVFGGIDDMNKRYYEGIHaqVFDLKTQTWHVGP-NLSV-KLACLNRS 200
Cdd:PLN02153   9 WIkVEQKGGK---GPGPRCSHGIAVVG---DKLYSFGGELKPNEHIDKDLY--VFDFNTHTWSIAPaNGDVpRISCLGVR 80
                         90
                 ....*....|....
gi 15235319  201 VVtpSLGRKIYVRG 214
Cdd:PLN02153  81 MV--AVGTKLYIFG 92
Kelch_1 pfam01344
Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six ...
146-191 1.70e-04

Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six copies of the motif. It has been shown that Swiss:Q04652 is related to Galactose Oxidase for which a structure has been solved. The kelch motif forms a beta sheet. Several of these sheets associate to form a beta propeller structure as found in pfam00064, pfam00400 and pfam00415.


Pssm-ID: 396078 [Multi-domain]  Cd Length: 46  Bit Score: 38.75  E-value: 1.70e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15235319   146 AAVGLVNDKIYVFGGIDdmNKRYYEGIHaqVFDLKTQTWHVGPNLS 191
Cdd:pfam01344   5 AGVVVVGGKIYVIGGFD--GNQSLNSVE--VYDPETNTWSKLPSMP 46
Kelch smart00612
Kelch domain;
154-195 1.70e-03

Kelch domain;


Pssm-ID: 128874 [Multi-domain]  Cd Length: 47  Bit Score: 36.00  E-value: 1.70e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 15235319    154 KIYVFGGIDDMNkryyegIHAQV--FDLKTQTWHVGPNLSVKLA 195
Cdd:smart00612   1 KIYVVGGFDGGQ------RLKSVevYDPETNKWTPLPSMPTPRS 38
 
Name Accession Description Interval E-value
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
12-56 6.15e-15

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, is a component of SCF (SKP1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438923  Cd Length: 45  Bit Score: 67.98  E-value: 6.15e-15
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 15235319  12 LFSLLPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKITR 56
Cdd:cd22152   1 LIPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPELFRVR 45
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
104-251 1.81e-09

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 57.86  E-value: 1.81e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 104 YFATLTLGPEIYFVGK------SRSMWILDSRSGKLRQGPR-PLVACDQAAVGLVNDKIYVFGGIDDMNKRYYEGIHAQV 176
Cdd:COG3055  15 EAAAALLDGKVYVAGGlsggsaSNSFEVYDPATNTWSELAPlPGPPRHHAAAVAQDGKLYVFGGFTGANPSSTPLNDVYV 94
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 177 FDLKTQTWHVGPNLSVKLAclnrSVVTPSLGRKIYVRG------TDRDVTIYDIKDGKCDKIIPA----DDFSSGdmCVV 246
Cdd:COG3055  95 YDPATNTWTKLAPMPTPRG----GATALLLDGKIYVVGgwddggNVAWVEVYDPATGTWTQLAPLptprDHLAAA--VLP 168

                ....*
gi 15235319 247 DNVIY 251
Cdd:COG3055 169 DGKIL 173
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
13-55 1.61e-07

F-box domain; This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 425796  Cd Length: 43  Bit Score: 47.15  E-value: 1.61e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15235319    13 FSLLPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKIT 55
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
104-212 2.03e-07

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 51.70  E-value: 2.03e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 104 YFATLTLGPEIYFVG----------KSRSMWILDSRSGKLRQGPRPLVACDQAAVGLVNDKIYVFGGIDDMNKRYYegih 173
Cdd:COG3055  63 HAAAVAQDGKLYVFGgftganpsstPLNDVYVYDPATNTWTKLAPMPTPRGGATALLLDGKIYVVGGWDDGGNVAW---- 138
                        90       100       110
                ....*....|....*....|....*....|....*....
gi 15235319 174 AQVFDLKTQTWHVGPNLSVKLACLNrsvVTPSLGRKIYV 212
Cdd:COG3055 139 VEVYDPATGTWTQLAPLPTPRDHLA---AAVLPDGKILV 174
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
134-293 3.85e-06

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 47.84  E-value: 3.85e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 134 RQGPRPLVACDQAAVGLVNDKIYVFGGIDD---MNKryyegihAQVFDLKTQTWHVGPNLSVKlaclNRS-VVTPSLGRK 209
Cdd:COG3055   4 SSLPDLPTPRSEAAAALLDGKVYVAGGLSGgsaSNS-------FEVYDPATNTWSELAPLPGP----PRHhAAAVAQDGK 72
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 210 IYV----------RGTDRDVTIYDIKDGKCDKIIP-ADDFSSGDMCVVDNVIY-----MYYHNVGLMW-YESKEKQWSVV 272
Cdd:COG3055  73 LYVfggftganpsSTPLNDVYVYDPATNTWTKLAPmPTPRGGATALLLDGKIYvvggwDDGGNVAWVEvYDPATGTWTQL 152
                       170       180
                ....*....|....*....|.
gi 15235319 273 HGLEFNGVFNSIAIAeYNGKL 293
Cdd:COG3055 153 APLPTPRDHLAAAVL-PDGKI 172
FBOX smart00256
A Receptor for Ubiquitination Targets;
16-56 8.74e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 42.04  E-value: 8.74e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 15235319     16 LPNDIVLNILARVPRWYHPILSCVSKNLRFLVSSSELKITR 56
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFWFKL 41
PLN02153 PLN02153
epithiospecifier protein
124-214 5.33e-05

epithiospecifier protein


Pssm-ID: 177814 [Multi-domain]  Cd Length: 341  Bit Score: 44.59  E-value: 5.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319  124 WI-LDSRSGKlrqGPRPLVACDQAAVGlvnDKIYVFGGIDDMNKRYYEGIHaqVFDLKTQTWHVGP-NLSV-KLACLNRS 200
Cdd:PLN02153   9 WIkVEQKGGK---GPGPRCSHGIAVVG---DKLYSFGGELKPNEHIDKDLY--VFDFNTHTWSIAPaNGDVpRISCLGVR 80
                         90
                 ....*....|....
gi 15235319  201 VVtpSLGRKIYVRG 214
Cdd:PLN02153  81 MV--AVGTKLYIFG 92
PLN02193 PLN02193
nitrile-specifier protein
106-220 5.62e-05

nitrile-specifier protein


Pssm-ID: 177844 [Multi-domain]  Cd Length: 470  Bit Score: 44.95  E-value: 5.62e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319  106 ATLTLGPEIYFVGKsrsmWILDSRSGklrQGPRPLVACDQAAVGlvnDKIYVFGGIDDMNKRYYEgiHAQVFDLKTQTWH 185
Cdd:PLN02193 139 AYISLPSTPKLLGK----WIKVEQKG---EGPGLRCSHGIAQVG---NKIYSFGGEFTPNQPIDK--HLYVFDLETRTWS 206
                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 15235319  186 VGPNLS--VKLACLNRSVVtpSLGRKIYVRGtDRDVT 220
Cdd:PLN02193 207 ISPATGdvPHLSCLGVRMV--SIGSTLYVFG-GRDAS 240
Kelch_1 pfam01344
Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six ...
146-191 1.70e-04

Kelch motif; The kelch motif was initially discovered in Kelch. In this protein there are six copies of the motif. It has been shown that Swiss:Q04652 is related to Galactose Oxidase for which a structure has been solved. The kelch motif forms a beta sheet. Several of these sheets associate to form a beta propeller structure as found in pfam00064, pfam00400 and pfam00415.


Pssm-ID: 396078 [Multi-domain]  Cd Length: 46  Bit Score: 38.75  E-value: 1.70e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 15235319   146 AAVGLVNDKIYVFGGIDdmNKRYYEGIHaqVFDLKTQTWHVGPNLS 191
Cdd:pfam01344   5 AGVVVVGGKIYVIGGFD--GNQSLNSVE--VYDPETNTWSKLPSMP 46
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
98-251 7.20e-04

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 40.91  E-value: 7.20e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319  98 TSPVEPYFAT-LTLGPEIYFVG------KSRSMWILDSRSGKLRQGPRPLVACD-QAAVGLVNDKIYVFGGIDdmnkryy 169
Cdd:COG3055 107 PMPTPRGGATaLLLDGKIYVVGgwddggNVAWVEVYDPATGTWTQLAPLPTPRDhLAAAVLPDGKILVIGGRN------- 179
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15235319 170 egihaqvFDLKTQTWHVGPNLSVKLAclnrSVVTPSLGRKIYV----RGTDRDVTIYDIKDGKCDKI--IPADDFSSGdM 243
Cdd:COG3055 180 -------GSGFSNTWTTLAPLPTARA----GHAAAVLGGKILVfggeSGFSDEVEAYDPATNTWTALgeLPTPRHGHA-A 247

                ....*...
gi 15235319 244 CVVDNVIY 251
Cdd:COG3055 248 VLTDGKVY 255
Kelch smart00612
Kelch domain;
154-195 1.70e-03

Kelch domain;


Pssm-ID: 128874 [Multi-domain]  Cd Length: 47  Bit Score: 36.00  E-value: 1.70e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 15235319    154 KIYVFGGIDDMNkryyegIHAQV--FDLKTQTWHVGPNLSVKLA 195
Cdd:smart00612   1 KIYVVGGFDGGQ------RLKSVevYDPETNKWTPLPSMPTPRS 38
Kelch_6 pfam13964
Kelch motif;
150-190 2.06e-03

Kelch motif;


Pssm-ID: 404790 [Multi-domain]  Cd Length: 50  Bit Score: 35.77  E-value: 2.06e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 15235319   150 LVNDKIYVFGGIDDMNKRYYEgihAQVFDLKTQTWHVGPNL 190
Cdd:pfam13964   9 SVGGYIYVFGGYTNASPALNK---LEVYNPLTKSWEELPPL 46
Kelch_4 pfam13418
Galactose oxidase, central domain;
146-190 6.96e-03

Galactose oxidase, central domain;


Pssm-ID: 433191 [Multi-domain]  Cd Length: 49  Bit Score: 34.12  E-value: 6.96e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15235319   146 AAVGLVNDKIYVFGGIDDMNKRYYegiHAQVFDLKTQTWHVGPNL 190
Cdd:pfam13418   6 TSTSIPDDTIYLFGGEGEDGTLLS---DLWVFDLSTNEWTRLGSL 47
 
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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