Psyllid ID: psy7983

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
Protein Sequence
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH
Secondary Structure (PSIPRED)
cccccccccccccccEEEEEccEEEEEEEccEEEEEEEEEcccccccEEEEEcccccEEEEEEEEcccccccccccEEEEEEEEEccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEcHHHHHHHHcccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccccEEEEEEEccccEEEcccHHHHHHHcEccccccccEEEcccccccccccccccccEEEEEEEccEEEEEEEEcccHHHHHHHHHHHHHHHHHccccccccHHHHHHHccccccccccccccHHHHHHHccccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MQQVTAVKKVTLAFHLALatdstftfgtIDEIQKLHirtvplgeaprriayqessqtfgviTTRIDIQEADASLNSFVSTglvtqispELYSFLFDLQERLAQTIRSVGRIEHSfwrsfntdvksdacegfidgdLIESFLDLNIKDMKSIAtglqitppgsttkrdatVDDIIKIVEDLTRIH
Flexible Loop (DISEMBL)
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPlgeaprriayqessqtfGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIatglqitppgsttkrdatvdDIIKIVEDLTRIH
Low Complexity Region (SEG)
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH
Disordered region (IsUnstruct)
*****AVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQIT*********ATVDDIIKIVE******
Disordered Region (DISOPRED)
*QQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKS*****************ATVDDIIKIVEDLTRI*
Disordered Region (DISEMBL)
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH
Disordered Region (DISPRO)
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITP***TTKRDATVDDIIKIVEDLTR**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MQQVTAVKKVTLAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	184	2.2.26 [Sep-21-2011]
Q805F9	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.596	3e-29
Q6P6Z0	1140	DNA damage-binding protei	N/A	N/A	0.559	0.090	0.576	3e-28
Q9ESW0	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.567	3e-28
P33194	1140	DNA damage-binding protei	N/A	N/A	0.559	0.090	0.567	3e-28
A1A4K3	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.567	3e-28
Q5R649	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.567	3e-28
Q16531	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.567	3e-28
Q3U1J4	1140	DNA damage-binding protei	yes	N/A	0.559	0.090	0.567	3e-28
Q9XYZ5	1140	DNA damage-binding protei	yes	N/A	0.679	0.109	0.472	3e-25
O49552	1088	DNA damage-binding protei	yes	N/A	0.505	0.085	0.394	6e-16

>sp|Q805F9|DDB1_CHICK DNA damage-binding protein 1 OS=Gallus gallus GN=DDB1 PE=2 SV=1

 Score =  127 bits (320), Expect = 3e-29,   Method: Composition-based stats.
 Identities = 62/104 (59%), Positives = 79/104 (75%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQI   GS  KR+ATVDD+IKIVE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQID-DGSGMKREATVDDLIKIVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1.
Gallus gallus (taxid: 9031)

>sp|Q6P6Z0|DDB1_XENLA DNA damage-binding protein 1 OS=Xenopus laevis GN=ddb1 PE=2 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 60/104 (57%), Positives = 78/104 (75%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDVQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQI   GS  KR+ TVDD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVIANLQID-DGSGMKRETTVDDLIKVVEELTRIH 1140

Required for DNA repair. Binds to ddb2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1.

Xenopus laevis (taxid: 8355)

>sp|Q9ESW0|DDB1_RAT DNA damage-binding protein 1 OS=Rattus norvegicus GN=Ddb1 PE=2 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Rattus norvegicus (taxid: 10116)

>sp|P33194|DDB1_CHLAE DNA damage-binding protein 1 OS=Chlorocebus aethiops GN=DDB1 PE=1 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Chlorocebus aethiops (taxid: 9534)

>sp|A1A4K3|DDB1_BOVIN DNA damage-binding protein 1 OS=Bos taurus GN=DDB1 PE=2 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Bos taurus (taxid: 9913)

>sp|Q5R649|DDB1_PONAB DNA damage-binding protein 1 OS=Pongo abelii GN=DDB1 PE=2 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Pongo abelii (taxid: 9601)

>sp|Q16531|DDB1_HUMAN DNA damage-binding protein 1 OS=Homo sapiens GN=DDB1 PE=1 SV=1

 Score =  124 bits (311), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Homo sapiens (taxid: 9606)

>sp|Q3U1J4|DDB1_MOUSE DNA damage-binding protein 1 OS=Mus musculus GN=Ddb1 PE=1 SV=2

 Score =  124 bits (311), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDB complex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excision repair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutane pyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function as a component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate the ubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3 ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1. DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 and histone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from the nucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPC and promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitination of TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays a role in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associated with CUL4 and SKP2.

Mus musculus (taxid: 10090)

>sp|Q9XYZ5|DDB1_DROME DNA damage-binding protein 1 OS=Drosophila melanogaster GN=pic PE=1 SV=1

 Score =  114 bits (286), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 61/129 (47%), Positives = 85/129 (65%), Gaps = 4/129 (3%)

Query: 56   QTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSF 115
            Q  G  TT I+      + N  +  G+VTQI  + Y FL  L+ERL + I+SVG+IEH++
Sbjct: 1016 QNVGERTTPINGCVLYGTCNGAI--GIVTQIPQDFYDFLHGLEERLKKIIKSVGKIEHTY 1073

Query: 116  WRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIK 175
            +R+F  + K +  EGFIDGDLIESFLDL+   M+    GL++T  G   ++ A V+D+IK
Sbjct: 1074 YRNFQINSKVEPSEGFIDGDLIESFLDLSRDKMRDAVQGLELTLNGE--RKSADVEDVIK 1131

Query: 176  IVEDLTRIH 184
            IVEDLTR+H
Sbjct: 1132 IVEDLTRMH 1140

Required for degradation of gig. Required for genomic stability in the face of endogenous DNA lesions and for the response to MMS-induced DNA damage. Required for normal wing development.

Drosophila melanogaster (taxid: 7227)

>sp|O49552|DDB1B_ARATH DNA damage-binding protein 1b OS=Arabidopsis thaliana GN=DDB1B PE=2 SV=2

 Score = 84.0 bits (206), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 41/104 (39%), Positives = 63/104 (60%), Gaps = 11/104 (10%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            G++  +  E Y+FL  LQ  L + I+ VG + H  WRSFN + ++   +G++DGDLIESF
Sbjct: 996  GVIASLPQEQYAFLEKLQTSLRKVIKGVGGLSHEQWRSFNNEKRTAEAKGYLDGDLIESF 1055

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LDL+   M+ I+ G+           D  V+++ K VE+LTR+H
Sbjct: 1056 LDLSRGKMEEISKGM-----------DVQVEELCKRVEELTRLH 1088

Component of light signal transduction machinery. Involved in repression of photomorphogenesis in darkness (By similarity). Plays a role in DNA repair by forming with DDB2 the UV-damaged DNA-binding protein complex (UV-DDB).

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
405970039	1160	DNA damage-binding protein 1 [Crassostre	0.570	0.090	0.650	9e-33
242010743	1148	DNA damage-binding protein, putative [Pe	0.570	0.091	0.613	1e-31
350410909	1141	PREDICTED: DNA damage-binding protein 1-	0.570	0.092	0.632	4e-31
340714589	1141	PREDICTED: DNA damage-binding protein 1-	0.570	0.092	0.632	4e-31
321478515	1158	hypothetical protein DAPPUDRAFT_303245 [	0.570	0.090	0.622	4e-31
58383228	1138	AGAP002472-PA [Anopheles gambiae str. PE	0.565	0.091	0.632	7e-31
332030156	1138	DNA damage-binding protein 1 [Acromyrmex	0.570	0.092	0.622	1e-30
345498295	1140	PREDICTED: DNA damage-binding protein 1-	0.559	0.090	0.634	1e-30
157128864	1138	DNA repair protein xp-e [Aedes aegypti]	0.565	0.091	0.632	1e-30
307205760	1138	DNA damage-binding protein 1 [Harpegnath	0.570	0.092	0.622	1e-30

>gi|405970039|gb|EKC34976.1| DNA damage-binding protein 1 [Crassostrea gigas]

 Score =  145 bits (365), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 69/106 (65%), Positives = 85/106 (80%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQ+  E YSFL D+Q RLA+ I+SVG+IEHSFWRSF+T+ K++ACEGFIDGDLIE
Sbjct: 1056 AVGLVTQVPQEFYSFLQDIQSRLAKVIKSVGKIEHSFWRSFHTERKTEACEGFIDGDLIE 1115

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDLN   M+    GLQI   GS  KR+ATVDD++K +E+LTRIH
Sbjct: 1116 SFLDLNRDKMQETVKGLQID-DGSGMKREATVDDLVKTIEELTRIH 1160

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|242010743|ref|XP_002426118.1| DNA damage-binding protein, putative [Pediculus humanus corporis] gi|212510165|gb|EEB13380.1| DNA damage-binding protein, putative [Pediculus humanus corporis]

 Score =  141 bits (355), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/106 (61%), Positives = 87/106 (82%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQIS   Y+FL +L+ +L + I+SVG+I+HSFWRSF T++K++ C+GFIDGDLIE
Sbjct: 1044 AIGLVTQISANFYNFLHELECKLTEVIKSVGKIKHSFWRSFTTEIKTEPCDGFIDGDLIE 1103

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+ + MK +A GLQI   GS  K++ATVDD++K+VEDLTRIH
Sbjct: 1104 SFLDLSHEKMKEVAAGLQID-NGSGMKQEATVDDLVKMVEDLTRIH 1148

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350410909|ref|XP_003489174.1| PREDICTED: DNA damage-binding protein 1-like [Bombus impatiens]

 Score =  139 bits (351), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 67/106 (63%), Positives = 83/106 (78%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI    Y FL +L+ERL   I+SVG+IEH+FWRSFNT++K + CEGFIDGDLIE
Sbjct: 1037 AIGLVTQIPFTFYEFLRNLEERLTGVIKSVGKIEHNFWRSFNTELKIEQCEGFIDGDLIE 1096

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+   M  +A+GL I  P S  K++ATVDD++KIVEDLTRIH
Sbjct: 1097 SFLDLSPNKMADVASGLMIDDP-SGMKKEATVDDLVKIVEDLTRIH 1141

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714589|ref|XP_003395809.1| PREDICTED: DNA damage-binding protein 1-like [Bombus terrestris]

 Score =  139 bits (351), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 67/106 (63%), Positives = 83/106 (78%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI    Y FL +L+ERL   I+SVG+IEH+FWRSFNT++K + CEGFIDGDLIE
Sbjct: 1037 AIGLVTQIPFTFYEFLRNLEERLTGVIKSVGKIEHNFWRSFNTELKIEQCEGFIDGDLIE 1096

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+   M  +A+GL I  P S  K++ATVDD++KIVEDLTRIH
Sbjct: 1097 SFLDLSPNKMADVASGLMIDDP-SGMKKEATVDDLVKIVEDLTRIH 1141

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321478515|gb|EFX89472.1| hypothetical protein DAPPUDRAFT_303245 [Daphnia pulex]

 Score =  139 bits (351), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 66/106 (62%), Positives = 84/106 (79%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + G+VTQ+  E Y FL ++Q R+A+ I+ VG+IEHSFWRSF T+ K + CEGFIDGDLIE
Sbjct: 1054 AIGVVTQLPSEFYHFLSEVQTRMARVIKPVGKIEHSFWRSFATERKVEPCEGFIDGDLIE 1113

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+   MK +ATGLQ+   GS  KR+ATV+DIIK++EDLTRIH
Sbjct: 1114 SFLDLSSDKMKEVATGLQMD-DGSGMKREATVEDIIKLIEDLTRIH 1158

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|58383228|ref|XP_312466.2| AGAP002472-PA [Anopheles gambiae str. PEST] gi|55242305|gb|EAA08181.2| AGAP002472-PA [Anopheles gambiae str. PEST]

 Score =  139 bits (349), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 67/106 (63%), Positives = 83/106 (78%), Gaps = 2/106 (1%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI  + Y FL  LQE L  TI+SVG+I+HS+WRSF+T+ K + CEGFIDGDL+E
Sbjct: 1035 AIGLVTQIQSDFYEFLRKLQENLTNTIKSVGKIDHSYWRSFHTETKMERCEGFIDGDLVE 1094

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+ + M+  + GL+I   G  TKR+ATVDDIIKIVEDLTRIH
Sbjct: 1095 SFLDLSREKMREASLGLEIDVEG--TKREATVDDIIKIVEDLTRIH 1138

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332030156|gb|EGI69950.1| DNA damage-binding protein 1 [Acromyrmex echinatior]

 Score =  138 bits (348), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/106 (62%), Positives = 82/106 (77%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI    Y FL ++++RL   I+SVG+IEH+FWRSFNT++K + CEGFIDGDLIE
Sbjct: 1034 AIGLVTQIPVTFYEFLRNMEDRLNSVIKSVGKIEHNFWRSFNTELKIEQCEGFIDGDLIE 1093

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDLN   M  +A GL I   GS  K++ATVDD++KIVEDLTRIH
Sbjct: 1094 SFLDLNHDKMAEVAMGLMID-DGSGMKKEATVDDLVKIVEDLTRIH 1138

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345498295|ref|XP_001607743.2| PREDICTED: DNA damage-binding protein 1-like [Nasonia vitripennis]

 Score =  138 bits (348), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/104 (63%), Positives = 82/104 (78%), Gaps = 1/104 (0%)

Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVTQI    Y FL +L++RL   I+SVG+IEH+FWRSFNTD+K + CEGFIDGDLIESF
Sbjct: 1038 GLVTQIPSTFYEFLRNLEDRLTSVIKSVGKIEHNFWRSFNTDLKIEQCEGFIDGDLIESF 1097

Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LDL+ + M  +A G+ I   GS  K++ATVDD++KIVEDLTRIH
Sbjct: 1098 LDLSHEKMAEVAMGIVID-DGSGMKKEATVDDLVKIVEDLTRIH 1140

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157128864|ref|XP_001655231.1| DNA repair protein xp-e [Aedes aegypti] gi|108882186|gb|EAT46411.1| AAEL002407-PB [Aedes aegypti]

 Score =  138 bits (347), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 67/106 (63%), Positives = 84/106 (79%), Gaps = 2/106 (1%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI  + Y FL  LQE L  TI+SVG+I+H++WRSF+T++K++ CEGFIDGDL+E
Sbjct: 1035 AIGLVTQIPADYYEFLRKLQENLTDTIKSVGKIDHAYWRSFHTEMKTERCEGFIDGDLVE 1094

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDL+ + M   A GLQI   G  TK++ATVDDIIKIVEDLTRIH
Sbjct: 1095 SFLDLSREKMHEAALGLQIDVDG--TKKEATVDDIIKIVEDLTRIH 1138

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307205760|gb|EFN83990.1| DNA damage-binding protein 1 [Harpegnathos saltator]

 Score =  138 bits (347), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/106 (62%), Positives = 82/106 (77%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
            + GLVTQI    Y FL +L++RL   I+SVG+IEH+FWRSFNT++K + CEGFIDGDLIE
Sbjct: 1034 AIGLVTQIPFAFYEFLRNLEDRLNSVIKSVGKIEHNFWRSFNTELKIEQCEGFIDGDLIE 1093

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLDLN   M  +A GL I   GS  K++ATVDD++K+VEDLTRIH
Sbjct: 1094 SFLDLNHDKMAEVAMGLMID-DGSGMKKEATVDDLVKVVEDLTRIH 1138

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	184
UNIPROTKB|Q6P6Z0	1140	ddb1 "DNA damage-binding prote	0.559	0.090	0.576	3.9e-44
FB|FBgn0260962	1140	pic "piccolo" [Drosophila mela	0.679	0.109	0.472	1.3e-40
UNIPROTKB|B4DG00	451	DDB1 "cDNA FLJ52436, highly si	0.907	0.370	0.434	1.7e-27
UNIPROTKB|F5GZ34	187	DDB1 "DNA damage-binding prote	0.907	0.893	0.434	1.7e-27
UNIPROTKB|Q805F9	1140	DDB1 "DNA damage-binding prote	0.896	0.144	0.440	3.1e-27
ZFIN|ZDB-GENE-040426-1272	1140	ddb1 "damage specific DNA bind	0.907	0.146	0.462	4e-27
UNIPROTKB|F8WF81	127	DDB1 "DNA damage-binding prote	0.684	0.992	0.488	4.5e-27
TAIR|locus:2127368	1088	DDB1B "damaged DNA binding pro	0.505	0.085	0.394	7.9e-27
MGI|MGI:1202384	1140	Ddb1 "damage specific DNA bind	0.907	0.146	0.434	3.7e-26
UNIPROTKB|A1A4K3	1140	DDB1 "DNA damage-binding prote	0.907	0.146	0.434	3.7e-26

UNIPROTKB|Q6P6Z0 ddb1 "DNA damage-binding protein 1" [Xenopus laevis (taxid:8355)]

 Score = 306 (112.8 bits), Expect = 3.9e-44, Sum P(2) = 3.9e-44
 Identities = 60/104 (57%), Positives = 78/104 (75%)

Query:    81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
             GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct:  1038 GLVTSLSESWYNLLLDVQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097

Query:   141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             LD++   M+ +   LQI   GS  KR+ TVDD+IK+VE+LTRIH
Sbjct:  1098 LDISRPKMQEVIANLQIDD-GSGMKRETTVDDLIKVVEELTRIH 1140

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0031464 "Cul4A-RING ubiquitin ligase complex" evidence=ISS

GO:0031465 "Cul4B-RING ubiquitin ligase complex" evidence=ISS

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=ISS

FB|FBgn0260962 pic "piccolo" [Drosophila melanogaster (taxid:7227)]

 Score = 278 (102.9 bits), Expect = 1.3e-40, Sum P(2) = 1.3e-40
 Identities = 61/129 (47%), Positives = 85/129 (65%)

Query:    56 QTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSF 115
             Q  G  TT I+      + N  +  G+VTQI  + Y FL  L+ERL + I+SVG+IEH++
Sbjct:  1016 QNVGERTTPINGCVLYGTCNGAI--GIVTQIPQDFYDFLHGLEERLKKIIKSVGKIEHTY 1073

Query:   116 WRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIK 175
             +R+F  + K +  EGFIDGDLIESFLDL+   M+    GL++T  G   ++ A V+D+IK
Sbjct:  1074 YRNFQINSKVEPSEGFIDGDLIESFLDLSRDKMRDAVQGLELTLNGE--RKSADVEDVIK 1131

Query:   176 IVEDLTRIH 184
             IVEDLTR+H
Sbjct:  1132 IVEDLTRMH 1140

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0006289 "nucleotide-excision repair" evidence=ISS;NAS

GO:0005634 "nucleus" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IMP

GO:0035220 "wing disc development" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0007307 "eggshell chorion gene amplification" evidence=IDA

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

UNIPROTKB|B4DG00 DDB1 "cDNA FLJ52436, highly similar to DNA damage-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 308 (113.5 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 76/175 (43%), Positives = 103/175 (58%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLH-IRTVPLGEAPRRIAYQES-SQTFGVITTRIDIQE 69
             AF+L +   DS  T  T +E Q L  +    LGE      +     Q  G  +T      
Sbjct:   282 AFNLFVCQKDSAAT--TDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNLGETSTPTQGSV 339

Query:    70 ADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACE 129
                ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   
Sbjct:   340 LFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPAT 397

Query:   130 GFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             GFIDGDLIESFLD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct:   398 GFIDGDLIESFLDISRPKMQEVVANLQYDD-GSGMKREATADDLIKVVEELTRIH 451

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F5GZ34 DDB1 "DNA damage-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 308 (113.5 bits), Expect = 1.7e-27, P = 1.7e-27
 Identities = 76/175 (43%), Positives = 103/175 (58%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLH-IRTVPLGEAPRRIAYQES-SQTFGVITTRIDIQE 69
             AF+L +   DS  T  T +E Q L  +    LGE      +     Q  G  +T      
Sbjct:    18 AFNLFVCQKDSAAT--TDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNLGETSTPTQGSV 75

Query:    70 ADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACE 129
                ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   
Sbjct:    76 LFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPAT 133

Query:   130 GFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             GFIDGDLIESFLD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct:   134 GFIDGDLIESFLDISRPKMQEVVANLQYDD-GSGMKREATADDLIKVVEELTRIH 187

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

UNIPROTKB|Q805F9 DDB1 "DNA damage-binding protein 1" [Gallus gallus (taxid:9031)]

 Score = 318 (117.0 bits), Expect = 3.1e-27, P = 3.1e-27
 Identities = 78/177 (44%), Positives = 107/177 (60%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLHIRTVPLGEAPRRI-AYQESS---QTFGVITTRIDI 67
             AF+L +   DS     T DE ++ H++ V L      +  +   S   Q  G  +T    
Sbjct:   971 AFNLFVCQKDSA---ATTDE-ERQHLQEVGLSHLGEFVNVFCHGSLVMQNLGETSTPTQG 1026

Query:    68 QEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDA 127
                  ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ 
Sbjct:  1027 SVLFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEP 1084

Query:   128 CEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
               GFIDGDLIESFLD++   M+ +   LQI   GS  KR+ATVDD+IKIVE+LTRIH
Sbjct:  1085 ATGFIDGDLIESFLDISRPKMQEVVANLQIDD-GSGMKREATVDDLIKIVEELTRIH 1140

GO:0003677 "DNA binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=ISS

GO:0031465 "Cul4B-RING ubiquitin ligase complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0031464 "Cul4A-RING ubiquitin ligase complex" evidence=ISS

ZFIN|ZDB-GENE-040426-1272 ddb1 "damage specific DNA binding protein 1" [Danio rerio (taxid:7955)]

 Score = 317 (116.6 bits), Expect = 4.0e-27, P = 4.0e-27
 Identities = 81/175 (46%), Positives = 106/175 (60%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLH-IRTVPLGEAPRRIAYQESS-QTFGVITTRIDIQE 69
             AF+L +   DS  T  T +E Q L  +    LGE     ++     Q  G  +T      
Sbjct:   971 AFNLFVCQKDSAAT--TDEERQHLQEVGLFHLGEFVNVFSHGSLVLQNLGESSTPTQGSV 1028

Query:    70 ADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACE 129
                ++N  +  GLVT +S   YS L DLQ RL + I+SVG+IEHSFWRSF+T+ K++   
Sbjct:  1029 LFGTVNGMI--GLVTSLSEGWYSLLLDLQNRLNKVIKSVGKIEHSFWRSFHTERKTEQAT 1086

Query:   130 GFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             GFIDGDLIESFLDL    M+ + + LQI   GS  KR+ATVD++IKIVE+LTRIH
Sbjct:  1087 GFIDGDLIESFLDLGRAKMQEVVSTLQIDD-GSGMKREATVDEVIKIVEELTRIH 1140

GO:0005634 "nucleus" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F8WF81 DDB1 "DNA damage-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 304 (112.1 bits), Expect = 4.5e-27, P = 4.5e-27
 Identities = 63/129 (48%), Positives = 85/129 (65%)

Query:    56 QTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSF 115
             Q  G  +T         ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSF
Sbjct:     2 QNLGETSTPTQGSVLFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSF 59

Query:   116 WRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIK 175
             WRSF+T+ K++   GFIDGDLIESFLD++   M+ +   LQ    GS  KR+AT DD+IK
Sbjct:    60 WRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDD-GSGMKREATADDLIK 118

Query:   176 IVEDLTRIH 184
             +VE+LTRIH
Sbjct:   119 VVEELTRIH 127

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

TAIR|locus:2127368 DDB1B "damaged DNA binding protein 1B" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 7.9e-27, Sum P(2) = 7.9e-27
 Identities = 41/104 (39%), Positives = 63/104 (60%)

Query:    81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
             G++  +  E Y+FL  LQ  L + I+ VG + H  WRSFN + ++   +G++DGDLIESF
Sbjct:   996 GVIASLPQEQYAFLEKLQTSLRKVIKGVGGLSHEQWRSFNNEKRTAEAKGYLDGDLIESF 1055

Query:   141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             LDL+   M+ I+ G+           D  V+++ K VE+LTR+H
Sbjct:  1056 LDLSRGKMEEISKGM-----------DVQVEELCKRVEELTRLH 1088

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

GO:0003684 "damaged DNA binding" evidence=ISS

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=RCA

GO:0006281 "DNA repair" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0009880 "embryonic pattern specification" evidence=RCA

GO:0010072 "primary shoot apical meristem specification" evidence=RCA

GO:0010100 "negative regulation of photomorphogenesis" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010431 "seed maturation" evidence=RCA

GO:0010564 "regulation of cell cycle process" evidence=RCA

GO:0045595 "regulation of cell differentiation" evidence=RCA

GO:0048366 "leaf development" evidence=RCA

GO:0048608 "reproductive structure development" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

MGI|MGI:1202384 Ddb1 "damage specific DNA binding protein 1" [Mus musculus (taxid:10090)]

 Score = 308 (113.5 bits), Expect = 3.7e-26, P = 3.7e-26
 Identities = 76/175 (43%), Positives = 103/175 (58%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLH-IRTVPLGEAPRRIAYQES-SQTFGVITTRIDIQE 69
             AF+L +   DS  T  T +E Q L  +    LGE      +     Q  G  +T      
Sbjct:   971 AFNLFVCQKDSAAT--TDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNLGEASTPTQGSV 1028

Query:    70 ADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACE 129
                ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   
Sbjct:  1029 LFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPAT 1086

Query:   130 GFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             GFIDGDLIESFLD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct:  1087 GFIDGDLIESFLDISRPKMQEVVANLQYDD-GSGMKREATADDLIKVVEELTRIH 1140

GO:0000075 "cell cycle checkpoint" evidence=ISO

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003684 "damaged DNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IDA

GO:0031464 "Cul4A-RING ubiquitin ligase complex" evidence=ISO

GO:0031465 "Cul4B-RING ubiquitin ligase complex" evidence=ISO

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISO

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=ISO

UNIPROTKB|A1A4K3 DDB1 "DNA damage-binding protein 1" [Bos taurus (taxid:9913)]

 Score = 308 (113.5 bits), Expect = 3.7e-26, P = 3.7e-26
 Identities = 76/175 (43%), Positives = 103/175 (58%)

Query:    13 AFHLALAT-DSTFTFGTIDEIQKLH-IRTVPLGEAPRRIAYQES-SQTFGVITTRIDIQE 69
             AF+L +   DS  T  T +E Q L  +    LGE      +     Q  G  +T      
Sbjct:   971 AFNLFVCQKDSAAT--TDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNLGETSTPTQGSV 1028

Query:    70 ADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACE 129
                ++N  +  GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   
Sbjct:  1029 LFGTVNGMI--GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPAT 1086

Query:   130 GFIDGDLIESFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
             GFIDGDLIESFLD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct:  1087 GFIDGDLIESFLDISRPKMQEVVANLQYDD-GSGMKREATADDLIKVVEELTRIH 1140

GO:0080008 "Cul4-RING ubiquitin ligase complex" evidence=ISS

GO:0031464 "Cul4A-RING ubiquitin ligase complex" evidence=ISS

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=ISS

GO:0031465 "Cul4B-RING ubiquitin ligase complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0016055 "Wnt receptor signaling pathway" evidence=IEA

GO:0000075 "cell cycle checkpoint" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q805F9	DDB1_CHICK	No assigned EC number	0.5961	0.5597	0.0903	yes	N/A
Q9ESW0	DDB1_RAT	No assigned EC number	0.5673	0.5597	0.0903	yes	N/A
A1A4K3	DDB1_BOVIN	No assigned EC number	0.5673	0.5597	0.0903	yes	N/A
Q3U1J4	DDB1_MOUSE	No assigned EC number	0.5673	0.5597	0.0903	yes	N/A
Q16531	DDB1_HUMAN	No assigned EC number	0.5673	0.5597	0.0903	yes	N/A
Q5R649	DDB1_PONAB	No assigned EC number	0.5673	0.5597	0.0903	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	184
pfam03178	318	pfam03178, CPSF_A, CPSF A subunit region	4e-11

>gnl|CDD|217409 pfam03178, CPSF_A, CPSF A subunit region

 Score = 59.9 bits (146), Expect = 4e-11
 Identities = 22/61 (36%), Positives = 33/61 (54%), Gaps = 2/61 (3%)

Query: 82  LVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFL 141
           LV  IS E Y  L  LQ++L   +  +  ++   +RS+    +S   +  IDGDL+E FL
Sbjct: 260 LVPFISEEEYRRLQHLQQQLRDELPHLCGLDPRAFRSYY--SRSPPVKNVIDGDLLERFL 317

Query: 142 D 142
           D
Sbjct: 318 D 318

This family includes a region that lies towards the C-terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit. CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs. The function of the aligned region is unknown but may be involved in RNA/DNA binding. Length = 318

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	184
KOG1897|consensus	1096		100.0
KOG1898|consensus	1205		99.64
PF03178	321	CPSF_A: CPSF A subunit region; InterPro: IPR004871	99.61
KOG1896|consensus	1366		99.6
COG5161	1319	SFT1 Pre-mRNA cleavage and polyadenylation specifi	98.85
PHA02945	88	interferon resistance protein; Provisional	83.91

>KOG1897|consensus

Probab=100.00  E-value=7.8e-38  Score=302.04  Aligned_cols=106  Identities=42%  Similarity=0.713  Sum_probs=98.0

Q ss_pred             ccceeeeEEEEEecChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCCCCCCCcceeehhHHHHHhcCCHHHHHHHH
Q psy7983          73 SLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIA  152 (184)
Q Consensus        73 ~~Ts~GsIG~V~pIs~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~r~~p~kgfIDGDLIE~FL~L~~~~q~eV~  152 (184)
                      |+|..|+||+|+.++++.|.||..||++|++.++++||++|.+||+|+.+.+.+|++|||||||||+|++|+++++.+|+
T Consensus       991 fgTv~GsIG~i~sl~~d~~~fL~~Lq~~irk~i~s~gglsH~~yrsf~~e~~~~P~~gfIDGDLiEsfl~l~~~~~~~i~ 1070 (1096)
T KOG1897|consen  991 FGTVNGSIGIIVSLPQDWYDFLEELQRRIRKVIKSVGGLSHMDYRSFEFEKRTSPVKGFIDGDLIESFLDLSRSKMREIV 1070 (1096)
T ss_pred             EEEccceEEEEEecCcchhHHHHHHHHHHHHhhcccCCcchhhHhhhhcccccCCCcCcccchHHHhhhccCHHHHHHHH
Confidence            34444999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCCCCCCCCCCHHHHHHHHHHHhccC
Q psy7983         153 TGLQITPPGSTTKRDATVDDIIKIVEDLTRIH  184 (184)
Q Consensus       153 ~~l~~~~~~~~~~~~~svedI~k~IEeL~rlH  184 (184)
                      +++.     ..++. .+++|+.|+||||+|||
T Consensus      1071 ~~~~-----~~~~~-~s~~el~k~vEel~rlh 1096 (1096)
T KOG1897|consen 1071 RGLE-----HTESL-ASVQELLKIVEELTRLH 1096 (1096)
T ss_pred             hhcc-----ccccc-CCHHHHHHHHHHHHhcC
Confidence            9997     22222 79999999999999999

>KOG1898|consensus

Probab=99.64  E-value=2.9e-16  Score=154.01  Aligned_cols=94  Identities=26%  Similarity=0.386  Sum_probs=89.4

Q ss_pred             ccceeeeEEEEEec-ChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCCCCCCCcceeehhHHHHHhcCCHHHHHHH
Q psy7983          73 SLNSFVSTGLVTQI-SPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSI  151 (184)
Q Consensus        73 ~~Ts~GsIG~V~pI-s~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~r~~p~kgfIDGDLIE~FL~L~~~~q~eV  151 (184)
                      +.|..|+||+++|+ +.+.++|+..+|..|++.-++++|.+|.+||+|++     |.|.+|||||||+|+.|+..+|++|
T Consensus      1108 y~tl~GtiG~f~p~~s~~d~~Ff~~~e~~~r~e~ppl~GrDH~~yRsyy~-----Pvk~VIDGDlceqF~~L~~~~Qe~v 1182 (1205)
T KOG1898|consen 1108 YTTLLGTIGVFAPFLSREDVDFFQHLEMHMRKEYPPLLGRDHLEYRSYYA-----PVKKVIDGDLCEQFLRLEENQQEEV 1182 (1205)
T ss_pred             eeeccccceEEeecccccchHHHHHHHHhccccCCcccCcchhhhhhhcc-----chhhcccHHHHHHHhhCCHHHHHHH
Confidence            78999999999999 55699999999999999999999999999999998     6899999999999999999999999


Q ss_pred             HhhcCCCCCCCCCCCCCCHHHHHHHHHHHhc
Q psy7983         152 ATGLQITPPGSTTKRDATVDDIIKIVEDLTR  182 (184)
Q Consensus       152 ~~~l~~~~~~~~~~~~~svedI~k~IEeL~r  182 (184)
                      ++.++           .+++||.|+||+++.
T Consensus      1183 a~el~-----------~ti~eI~kkledir~ 1202 (1205)
T KOG1898|consen 1183 AEELD-----------RTIEEISKKLEDIRT 1202 (1205)
T ss_pred             Hhccc-----------CCHHHHHHHHHHHHh
Confidence            99997           799999999999873

>PF03178 CPSF_A: CPSF A subunit region; InterPro: IPR004871 This family includes a region that lies towards the C terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit

Probab=99.61  E-value=3.6e-16  Score=135.48  Aligned_cols=69  Identities=36%  Similarity=0.574  Sum_probs=57.6

Q ss_pred             ccceeeeEEEEEe-cChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCCCCCCCcceeehhHHHHHhc
Q psy7983          73 SLNSFVSTGLVTQ-ISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLD  142 (184)
Q Consensus        73 ~~Ts~GsIG~V~p-Is~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~r~~p~kgfIDGDLIE~FL~  142 (184)
                      ++|.+|+||++.| ++++.|++|..||+.|.+.++++||++|++||+++++ +.++++|||||||||+||+
T Consensus       252 ~~T~~G~Ig~l~p~l~~~~~~~L~~lQ~~l~~~~~~~~gl~~~~~R~~~~~-~~~~~~~~iDgdll~~fl~  321 (321)
T PF03178_consen  252 YGTVDGSIGVLIPFLSEEEYRFLQALQNNLRKHIPSLGGLNPRSFRSYKNP-RMKRSKGFIDGDLLEQFLE  321 (321)
T ss_dssp             EEETTS-EEEEEE-E-HHHHHHHHHHHHHHHHHS--TTS--HHHHTSEEES-EEE--BSEEEHHHHHGGGG
T ss_pred             EEecCCEEEEEEecCCHHHHHHHHHHHHHHHhhCCCCccCChHHhccccCc-cccCCCccCcHHHHHHhhC
Confidence            8899999999999 8999999999999999999999999999999999997 4334899999999999996

CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs []. The function of the aligned region is unknown but may be involved in RNA/DNA binding.; GO: 0003676 nucleic acid binding, 0005634 nucleus; PDB: 2B5M_A 4A0K_C 4A0B_C 3I7L_A 3I8E_A 4A09_A 4A0A_A 3EI4_C 2B5L_A 3I7O_A ....

>KOG1896|consensus

Probab=99.60  E-value=1.4e-15  Score=150.75  Aligned_cols=100  Identities=20%  Similarity=0.344  Sum_probs=93.9

Q ss_pred             ccceeeeEEEEEecChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCC-CCCCCcceeehhHHHHHhcCCHHHHHHH
Q psy7983          73 SLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDV-KSDACEGFIDGDLIESFLDLNIKDMKSI  151 (184)
Q Consensus        73 ~~Ts~GsIG~V~pIs~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~-r~~p~kgfIDGDLIE~FL~L~~~~q~eV  151 (184)
                      ++|+||++|.++||++++||+|..||+.|.+.++++|||||++||.+.... ...|+|++|||+||.+|..|+-++|+++
T Consensus      1262 ~gtlDG~l~~~~Pl~e~~YRRL~~lQn~L~~~~~hv~GLNPr~yR~~~s~~~~~n~~r~ilDg~ll~~f~yl~~~er~el 1341 (1366)
T KOG1896|consen 1262 FGTLDGGLGHLVPLDEKTYRRLLMLQNALMDRLPHVGGLNPRAYRLLDSSLQLSNSLRSILDGELLNRFSYLSMSEREEL 1341 (1366)
T ss_pred             hcccCCceeEEecCCHHHHHHHHHHHHHHHHhhhhhcCCCHHHhhhccchhhhcCCCcccchHhHHHHhhccchhhHHHH
Confidence            789999999999999999999999999999999999999999999887766 3678999999999999999999999999


Q ss_pred             HhhcCCCCCCCCCCCCCCHHHHHHHHHHHhcc
Q psy7983         152 ATGLQITPPGSTTKRDATVDDIIKIVEDLTRI  183 (184)
Q Consensus       152 ~~~l~~~~~~~~~~~~~svedI~k~IEeL~rl  183 (184)
                      |+++|           .++++|+++|-+|.++
T Consensus      1342 A~kiG-----------t~~~eIl~DLvel~~~ 1362 (1366)
T KOG1896|consen 1342 AHKIG-----------TTRKEILDDLVELDRL 1362 (1366)
T ss_pred             HHhcC-----------CCHHHHHHHHHHHHHH
Confidence            99999           6899999999888763

>COG5161 SFT1 Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification]

Probab=98.85  E-value=4.9e-09  Score=102.66  Aligned_cols=156  Identities=19%  Similarity=0.184  Sum_probs=111.7

Q ss_pred             ecCCCeeeeeehhhhhcccceee----cCCCCccccccccccceeEEEeeee-----------cccccCc----ccceee
Q psy7983          18 LATDSTFTFGTIDEIQKLHIRTV----PLGEAPRRIAYQESSQTFGVITTRI-----------DIQEADA----SLNSFV   78 (184)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~qs~tfa~~s~~~-----------~v~~~~~----~~Ts~G   78 (184)
                      |.+.++|..---|.=-.+|.-|-    |..-+.-|+-|-   ++|-+=++..           ...-.++    ...++|
T Consensus      1144 Lv~G~~lyf~~~Da~gnih~l~Y~P~np~S~sG~RLV~r---ssFtlhs~~~~m~llPrn~efG~~~~~~f~~v~~~sdG 1220 (1319)
T COG5161        1144 LVTGNELYFLCCDAKGNIHGLTYSPNNPISMSGARLVKR---SSFTLHSAEIKMNLLPRNSEFGAGFKKNFIMVYSRSDG 1220 (1319)
T ss_pred             hccCCeeEEEEEcCCCCEEEEecCCCCccccCcceeEee---ccccccchhhhhhhccchhhhCCCCCCceeEEEEccCC
Confidence            45677777777777777777764    444455555542   1221111110           0011111    457999


Q ss_pred             eEEEEEecChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCCC-CCCCcceeehhHHHHHhcCCHHHHHHHHhhcCC
Q psy7983          79 STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVK-SDACEGFIDGDLIESFLDLNIKDMKSIATGLQI  157 (184)
Q Consensus        79 sIG~V~pIs~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~r-~~p~kgfIDGDLIE~FL~L~~~~q~eV~~~l~~  157 (184)
                      ++-.|+||++..|++|..+|+++.+.++.+|||||+.||-...++. ..+.|..+||.+|..|-.|+-+.|++|+++.|-
T Consensus      1221 ~l~~vvpisd~~YrrL~~IQ~~i~~r~~~vgGLNpr~yRL~~d~~~~~~s~r~~ld~~ii~~F~y~~~~~r~sva~kaGr 1300 (1319)
T COG5161        1221 MLIHVVPISDAHYRRLLGIQTAIMARLKSVGGLNPRDYRLNSDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGR 1300 (1319)
T ss_pred             cEEEEeccCHHHHHHHHHHHHHHHHHHHhhcCCChhhhhhccCHHHhcCCcccchhhhhhhhhhhcchhhhhHHHhhcCC
Confidence            9999999999999999999999999999999999999997655554 567899999999999999999999999999983


Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHhcc
Q psy7983         158 TPPGSTTKRDATVDDIIKIVEDLTRI  183 (184)
Q Consensus       158 ~~~~~~~~~~~svedI~k~IEeL~rl  183 (184)
                      . .      ..-..|+....+-|+.|
T Consensus      1301 ~-~------~~e~~D~i~~~~~lrsl 1319 (1319)
T COG5161        1301 I-D------RKEISDMIASLNLLRSL 1319 (1319)
T ss_pred             c-h------HHHHHHHHHHHHHHhcC
Confidence            1 1      01233666666666644

>PHA02945 interferon resistance protein; Provisional

Probab=83.91  E-value=0.87  Score=33.89  Aligned_cols=35  Identities=23%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             eeeeeeecCCCeeeeeehhhhhcccceeecCCCCccc
Q psy7983          12 LAFHLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRR   48 (184)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   48 (184)
                      ||||-.+-++|+|+||++.+  +=++-+|-|.|+|=.
T Consensus         2 lafcy~~P~~GelvigtV~~--~d~ga~v~L~EY~g~   36 (88)
T PHA02945          2 LAFCYSLPNVGDVLKGKVYE--NGYALYIDLFDYPHS   36 (88)
T ss_pred             eeeeecCCCCCcEEEEEEEe--cCceEEEEecccCCc
Confidence            78999999999999999999  999999999998643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	184
3i7h_A	1143	Crystal Structure Of Ddb1 In Complex With The H-Box		2e-29
2b5l_A	1140	Crystal Structure Of Ddb1 In Complex With Simian Vi		2e-29
4a0l_A	1144	Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp		3e-29
3e0c_A	1140	Crystal Structure Of Dna Damage-Binding Protein 1(D		3e-29
4e54_A	1150	Damaged Dna Induced Uv-Damaged Dna-Binding Protein		3e-29
3ei4_A	1158	Structure Of The Hsddb1-Hsddb2 Complex Length = 115		3e-29
4a11_A	1159	Structure Of The Hsddb1-Hscsa Complex Length = 1159		3e-29
3ei1_A	1158	Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Pho		3e-29
4a08_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Dup		3e-29
4a0b_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		3e-29
4a0a_A	1159	Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Dup		3e-29

>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of Hbx Length = 1143

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1041 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1100
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1101 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1143

>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V Protein Length = 1140

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic Site Containing Dna-Duplex Length = 1144

Iteration: 1
 Score =  124 bits (312), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1042 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1101
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1102 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1144

>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1) Length = 1140

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140

>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb) Dimerization And Its Roles In Chromatinized Dna Repair Length = 1150

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1048 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1107
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1108 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1150

>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex Length = 1158

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1056 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1115
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1116 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1158

>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex Length = 1159

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159

>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Photoproduct Containing Dna-Duplex Length = 1158

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1056 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1115
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1116 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1158

>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex ( Purine At D-1 Position) At 3.0 A Resolution (Cpd 1) Length = 1159

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159

>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex ( Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4) Length = 1159

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159

>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex ( Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3) Length = 1159

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81   GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
            GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141  LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            LD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	184
3ei3_A	1158	DNA damage-binding protein 1; UV-damage, DDB, nucl	5e-27
3ei3_A	1158	DNA damage-binding protein 1; UV-damage, DDB, nucl	4e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05

>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ... Length = 1158

 Score =  106 bits (264), Expect = 5e-27
 Identities = 59/106 (55%), Positives = 77/106 (72%), Gaps = 1/106 (0%)

Query: 79   STGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIE 138
              GLVT +S   Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++   GFIDGDLIE
Sbjct: 1054 MIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIE 1113

Query: 139  SFLDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
            SFLD++   M+ +   LQ    GS  KR+AT DD+IK+VE+LTRIH
Sbjct: 1114 SFLDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1158

>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ... Length = 1158

 Score = 54.2 bits (129), Expect = 4e-09
 Identities = 41/106 (38%), Positives = 56/106 (52%)

Query: 15  HLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADASL 74
            LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+     
Sbjct: 708 SLALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGT 767

Query: 75  NSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFN 120
            +   +     +S  + S                  +E       +
Sbjct: 768 TALRPSASTQALSSSVSSSKLFSSSTAPHETSFGEEVEVHNLLIID 813

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.5 bits (99), Expect = 4e-05
 Identities = 17/153 (11%), Positives = 43/153 (28%), Gaps = 30/153 (19%)

Query: 54  SSQTFGVITTRIDIQEADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGR--- 110
            +    +I   +   +    +N      LV +   E    +  +   L   + +      
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447

Query: 111 --IEH-SFWRSF-NTDVKSDACEGFI------------DGDLIESF----LDLNIKDMKS 150
             ++H +  ++F + D+     + +               + +  F    LD    + K 
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507

Query: 151 IATGLQITPPGSTTKRDATVDDIIK----IVED 179
                     GS      T+  +      I ++
Sbjct: 508 RHDSTAWNASGSIL---NTLQQLKFYKPYICDN 537

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 7e-05
 Identities = 32/213 (15%), Positives = 60/213 (28%), Gaps = 77/213 (36%)

Query: 30  DEIQKLHIRTVPLGEAPRRI----AYQES------------SQTFGV-----ITTRIDIQ 68
           D    + +R   +    RR+     Y+                 F +     +TTR    
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR---- 273

Query: 69  EADASLNSFVSTGLVTQISPELYSFLFDLQERLAQTIRSVG------------------- 109
                +  F+S    T IS + +S      E  +  ++ +                    
Sbjct: 274 --FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 110 -----------RIEHSFWRSFNTDVKSDACEGFIDGDLIESFLD-LNIKDMKSIATGLQI 157
                        +   W+  N D  +           IES L+ L   + + +   L +
Sbjct: 332 IIAESIRDGLATWD--NWKHVNCDKLTTI---------IESSLNVLEPAEYRKMFDRLSV 380

Query: 158 TPPGS--TTK------RDATVDDIIKIVEDLTR 182
            PP +   T        D    D++ +V  L +
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	184
3ei3_A	1158	DNA damage-binding protein 1; UV-damage, DDB, nucl	99.97

>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision repair, xeroderma pigmentosum, cytoplasm, DNA repair; HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A* 3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A* 3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A 2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...

Probab=99.97  E-value=1.6e-30  Score=258.14  Aligned_cols=108  Identities=55%  Similarity=0.892  Sum_probs=93.0

Q ss_pred             eeeeEEEEEecChHHHHHHHHHHHHHHhhcCCCcCCCCcccceeecCCCCCCCcceeehhHHHHHhcCCHHHHHHHHhhc
Q psy7983          76 SFVSTGLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESFLDLNIKDMKSIATGL  155 (184)
Q Consensus        76 s~GsIG~V~pIs~~~y~~L~~LQ~~L~~~v~~vGGl~h~~yRs~~~~~r~~p~kgfIDGDLIE~FL~L~~~~q~eV~~~l  155 (184)
                      .+|+||+++|++++.|+||..||..|++.++++||++|++||+|++.++..|++|||||||||+|++|+.++|++|++++
T Consensus      1051 ~~GsIg~l~pl~~~~~~~L~~Lq~~l~~~~~~~~gl~~~~~Rs~~~~~~~~~~~~~iDGdLle~fl~L~~~~q~~ia~~l 1130 (1158)
T 3ei3_A         1051 VNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANL 1130 (1158)
T ss_dssp             TTSCEEEEEEECHHHHHHHHHHHHHHHHHSCCTTSCCHHHHHSEECSSCEECCBSEEEHHHHHGGGGSCHHHHHHHCCCC
T ss_pred             cCCEEEEEEEcCHHHHHHHHHHHHHHHhhCCCCcCCCHHHhhCeecccccCCCCccCcHHHHHHHHcCCHHHHHHHHHhh
Confidence            34899999999999999999999999999999999999999999998777889999999999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHhccC
Q psy7983         156 QITPPGSTTKRDATVDDIIKIVEDLTRIH  184 (184)
Q Consensus       156 ~~~~~~~~~~~~~svedI~k~IEeL~rlH  184 (184)
                      ++ +.+++++++.|++||.|+||||+|||
T Consensus      1131 ~~-~~~~~~~~~~t~~ei~k~~e~l~r~h 1158 (1158)
T 3ei3_A         1131 QY-DDGSGMKREATADDLIKVVEELTRIH 1158 (1158)
T ss_dssp             -------------CCHHHHHHHHHHGGGC
T ss_pred             Cc-cccccccCCCCHHHHHHHHHHHhhcC
Confidence            74 45688999999999999999999999

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00