BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy92
(638 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 141/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 846 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 894
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + + T + + + + + ILVGD RS+ LL Y
Sbjct: 895 NGKLLASINSTVRLYEWTTEKDVRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 953
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 954 KPMEGNFEEIARDFNPN----------------------WM------------------S 973
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 974 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1025
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1026 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1084
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1085 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1142
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1143 TADDLIKV 1150
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 141/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 828 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 876
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + + T + + + + + ILVGD RS+ LL Y
Sbjct: 877 NGKLLASINSTVRLYEWTTEKDVRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 935
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 936 KPMEGNFEEIARDFNPN----------------------WM------------------S 955
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 956 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1007
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1008 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1066
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1067 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1124
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1125 TADDLIKV 1132
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
Length = 1143
Score = 64.3 bits (155), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 141/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 831 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 879
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + + T + + + + + ILVGD RS+ LL Y
Sbjct: 880 NGKLLASINSTVRLYEWTTEKDVRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 938
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 939 KPMEGNFEEIARDFNPN----------------------WM------------------S 958
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 959 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1010
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1011 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1069
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1070 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1127
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1128 TADDLIKV 1135
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Photoproduct
Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 846 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 894
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 895 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 953
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 954 KPMEGNFEEIARDFNPN----------------------WM------------------S 973
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 974 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1025
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1026 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1084
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1085 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1142
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1143 TADDLIKV 1150
>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
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 847 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 895
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 896 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 954
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 955 KPMEGNFEEIARDFNPN----------------------WM------------------S 974
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 975 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1026
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1027 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1086 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1143
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1144 TADDLIKV 1151
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 832 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 880
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 881 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 939
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 940 KPMEGNFEEIARDFNPN----------------------WM------------------S 959
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 960 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1011
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1012 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1070
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1071 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1128
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1129 TADDLIKV 1136
>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)
pdb|4A0B|C Chain C, 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
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 847 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 895
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 896 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 954
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 955 KPMEGNFEEIARDFNPN----------------------WM------------------S 974
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 975 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1026
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1027 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1086 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1143
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1144 TADDLIKV 1151
>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)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 847 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 895
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 896 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 954
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 955 KPMEGNFEEIARDFNPN----------------------WM------------------S 974
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 975 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1026
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1027 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1086 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1143
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1144 TADDLIKV 1151
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 828 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 876
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 877 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 935
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 936 KPMEGNFEEIARDFNPN----------------------WM------------------S 955
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 956 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1007
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1008 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1066
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1067 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1124
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1125 TADDLIKV 1132
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
Length = 1150
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 838 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 886
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 887 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 945
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 946 KPMEGNFEEIARDFNPN----------------------WM------------------S 965
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 966 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1017
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1018 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1076
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1077 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1134
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1135 TADDLIKV 1142
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 81/368 (22%), Positives = 140/368 (38%), Gaps = 77/368 (20%)
Query: 278 YIALGTNYNYSEDVTCR-GRILLFDIIEVVPEPGQPLTKNKIKMIYAKEQKGPVTAICHV 336
Y +GT Y E+ + GRI++F + K++ + KE KG V ++
Sbjct: 847 YFIVGTAMVYPEEAEPKQGRIVVFQ-----------YSDGKLQTVAEKEVKGAVYSMVEF 895
Query: 337 AGFLVTAVGQ--KIYIWQLKDNDLTGIAFIDTEVYIASMVSVKNLILVGDYARSIALLRY 394
G L+ ++ ++Y W + T + + + + + ILVGD RS+ LL Y
Sbjct: 896 NGKLLASINSTVRLYEWTTEKELRTECNHYNN-IMALYLKTKGDFILVGDLMRSVLLLAY 954
Query: 395 QPEYRTLSLVARDYKPTQPNSKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKIGSK 454
+P +ARD+ P W
Sbjct: 955 KPMEGNFEEIARDFNPN----------------------WM------------------S 974
Query: 455 HNDILDEFSSMGFMISDKDKNVVLFMYQPEARESNGGHR--LIKKTDFHLGQHVNTFFKI 512
+ILD+ + +G + LF+ Q ++ + R L + FHLG+ VN F
Sbjct: 975 AVEILDDDNFLG-----AENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVF--- 1026
Query: 513 RCKPSSISDAPGARS---RFLTWYASLDGALGFFLPLPEKNYRRLLMLQNVMVTHTSHTG 569
C S + G S + + +++G +G L E Y LL +QN + G
Sbjct: 1027 -CHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 570 GLNPRAFRTYKGKGYYAGNPSRGIIDGSLVWKFLQLSLGERLEICKKI------GSKHND 623
+ +R++ + P+ G IDG L+ FL +S + E+ + G K
Sbjct: 1086 KIEHSFWRSFHTE--RKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREA 1143
Query: 624 ILDELYDI 631
D+L +
Sbjct: 1144 TADDLIKV 1151
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,026,483
Number of Sequences: 62578
Number of extensions: 860063
Number of successful extensions: 1454
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1432
Number of HSP's gapped (non-prelim): 22
length of query: 638
length of database: 14,973,337
effective HSP length: 105
effective length of query: 533
effective length of database: 8,402,647
effective search space: 4478610851
effective search space used: 4478610851
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)