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= 000944
(1213 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 220 bits (561), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 503/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 21 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 79
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 80 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 139
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 140 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 190
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 191 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 237
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 238 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 291
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 292 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 342
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 343 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 377
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 378 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 436
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 437 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 496
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 497 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 554
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 555 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 611
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 612 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 659
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 660 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 719
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 720 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 778
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 779 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 821
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 822 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 876
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 877 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 936
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 937 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 996
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 997 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1038
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1039 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1096
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1097 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1140
>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 = 220 bits (560), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 503/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 7 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 65
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 66 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 125
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 126 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 176
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 177 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 223
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 224 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 277
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 278 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 328
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 329 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 363
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 364 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 422
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 423 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 482
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 483 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 540
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 541 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 597
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 598 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 645
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 646 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 705
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 706 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 764
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 765 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 807
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 808 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 862
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 863 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 922
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 923 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 982
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 983 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1024
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1025 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1082
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1083 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1126
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 220 bits (560), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 503/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 3 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 61
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 62 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 121
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 122 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 172
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 173 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 219
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 220 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 273
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 274 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 324
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 325 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 359
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 360 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 418
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 419 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 478
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 479 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 536
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 537 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 593
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 594 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 641
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 642 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 701
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 702 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 760
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 761 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 803
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 804 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 858
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 859 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 918
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 919 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 978
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 979 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1020
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1021 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1078
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1079 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1122
>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 = 220 bits (560), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 503/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 13 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 71
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 72 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 131
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 132 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 182
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 183 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 229
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 230 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 283
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 284 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 334
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 335 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 369
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 370 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 428
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 429 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 488
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 489 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 546
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 547 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 603
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 604 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 651
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 652 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 711
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 712 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 770
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 771 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 813
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 814 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 868
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 869 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 928
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 929 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 988
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 989 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1030
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1031 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1088
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1089 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1132
>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 = 219 bits (559), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 503/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 22 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 80
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 81 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 140
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 141 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 191
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 192 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 238
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 239 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 292
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 293 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 343
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 344 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 378
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 379 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 437
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 438 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 497
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 498 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 555
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 556 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 612
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 613 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 660
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 661 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 720
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 721 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 779
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 780 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 822
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 823 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 877
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 878 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 937
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 938 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 997
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 998 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1039
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1040 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1097
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1098 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1141
>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 = 219 bits (558), Expect = 7e-57, Method: Compositional matrix adjust.
Identities = 279/1245 (22%), Positives = 503/1245 (40%), Gaps = 167/1245 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 22 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 80
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 81 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 140
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 141 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 191
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 192 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 238
Query: 235 VTVPGGGDGP-SGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIV 284
+ VP P G ++ + + Y N P ++ V R D R +L
Sbjct: 239 IAVPS----PFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL-- 292
Query: 285 SAATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLF 344
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 293 ---GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVF 342
Query: 345 AASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMP 404
S G+ L + + D + + S MET +L P
Sbjct: 343 VGSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGP 377
Query: 405 IMDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNV 464
I+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ +
Sbjct: 378 IVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDP 436
Query: 465 NDEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIR 523
N E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 437 NRETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVR 496
Query: 524 HIREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMS 581
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 497 LVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEME 554
Query: 582 GDVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLL 638
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 555 HEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSIL 611
Query: 639 FLEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFS 698
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 612 MTTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRT 659
Query: 699 VVVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALR 758
+ S RP + Y + + + ++ + + Y +SD + + + L
Sbjct: 660 FRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLT 719
Query: 759 VFTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKE 813
+ TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 720 IGTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQ 778
Query: 814 CFXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTT 873
+ +G + V + ++D +
Sbjct: 779 ALSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVL 821
Query: 874 CLLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKS 933
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK
Sbjct: 822 HAHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK- 876
Query: 934 LELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTY 993
L+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 877 LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTK 936
Query: 994 RDRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFV 1053
D I VGD+ S Y+ E A D P W++A +D D GA+ N++
Sbjct: 937 GDFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVC 996
Query: 1054 RLPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------ 1107
+ +D + +E+ ++E+ FH+G+ V SLV
Sbjct: 997 Q--KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGE 1038
Query: 1108 ---PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAY 1164
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1039 TSTPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFH 1096
Query: 1165 F-----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1097 TERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1141
>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 = 219 bits (557), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 502/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 22 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 80
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 81 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 140
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 141 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 191
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 192 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 238
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP G ++ + + Y N P ++ V R D R +L
Sbjct: 239 IAVP---KPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 292
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 293 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 343
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 344 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 378
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 379 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 437
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 438 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 497
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 498 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 555
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 556 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 612
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 613 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 660
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 661 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 720
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 721 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 779
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 780 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 822
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 823 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 877
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 878 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 937
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 938 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 997
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 998 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1039
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1040 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1097
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1098 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1141
>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 = 219 bits (557), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 278/1244 (22%), Positives = 502/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 22 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 80
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 81 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 140
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 141 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 191
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ +L E + G W E V+ A+M+
Sbjct: 192 CQAPTICFVY-------QDPQGRHVKTYAVSLREKEFNKG------PWKQENVEAEASMV 238
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 239 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 292
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 293 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 343
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 344 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 378
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 379 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 437
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E D +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 438 RETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 497
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 498 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 555
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 556 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 612
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 613 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 660
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 661 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 720
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 721 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 779
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 780 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 822
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 823 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 877
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ LR N + + T
Sbjct: 878 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKG 937
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 938 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 997
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 998 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1039
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1040 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1097
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1098 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1141
>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 = 214 bits (546), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 276/1244 (22%), Positives = 502/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 21 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 79
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 80 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 139
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 140 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 190
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 191 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 237
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 238 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 291
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 292 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 342
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 343 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 377
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 378 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 436
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 437 RETYDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 496
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 497 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 554
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 555 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 611
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 612 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 659
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 660 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 719
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 720 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 778
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 779 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 821
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 822 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 876
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ +R N + + T
Sbjct: 877 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVRTECNHYNNIMALYLKTKG 936
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 937 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 996
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 997 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1038
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1039 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1096
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1097 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1140
>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 = 214 bits (546), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 275/1244 (22%), Positives = 502/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 6 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 64
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 65 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 124
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + ID
Sbjct: 125 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE---------ELHVIDVK 171
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
F ++ QD G+ + +L E + G W E V+ A+M+
Sbjct: 172 F---LYGCQAPTICFVYQDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 222
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 223 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 276
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 277 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 327
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 328 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 362
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 363 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 421
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 422 RETYDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 481
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 482 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 539
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 540 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 596
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 597 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 644
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 645 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 704
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 705 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 763
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 764 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 806
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 807 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 861
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ +R N + + T
Sbjct: 862 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVRTECNHYNNIMALYLKTKG 921
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 922 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 981
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 982 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1023
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1024 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1081
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1082 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1125
>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 = 214 bits (545), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 276/1244 (22%), Positives = 502/1244 (40%), Gaps = 165/1244 (13%)
Query: 2 YLYSLTLQQPTGIIAAINGNFSGTKTPEIVVARGKVLELLRPENSGRIETLVSTEIFGAI 61
Y Y +T Q+PT + + G+F+ + +++A+ LE+ G + + ++G I
Sbjct: 3 YNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEG-LRPVKEVGMYGKI 61
Query: 62 RSLAQFRLTGSQKDYIVVGSDSGRIVILEYNPSKNVFDKIH------QETFGKSGCRRIV 115
+ FR G KD + + + ILEY S D I Q+ G+ I+
Sbjct: 62 AVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGII 121
Query: 116 PGQYLAVDPKGRAVMIGACEKQKLVYVLNRDTAARLTISSPLEAHKSHTIVYSICGIDCG 175
+DP+ R + + + V L+RD + LE + H I G
Sbjct: 122 G----IIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLE--ELHVIDVKFL---YG 172
Query: 176 FDNPIFAAIELDYSEADQDSTGQAASEAQKNLTFYELDLGLNHVSRKWS-EPVDNGANML 234
P + QD G+ + +L E + G W E V+ A+M+
Sbjct: 173 CQAPTICFVY-------QDPQGRHVKTYEVSLREKEFNKG------PWKQENVEAEASMV 219
Query: 235 VTVPGGGDGPSGVLVCAENFVIYKNQGH------PDVRA---VIPRRADLPAERGVLIVS 285
+ VP + G ++ + + Y N P ++ V R D R +L
Sbjct: 220 IAVP---EPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLL--- 273
Query: 286 AATHRQKTLFFFLLQTEYGDIFKVTLEHDNEHVSELKIKYFDTIPVTASMCVLKSGYLFA 345
+ LF LL+ E VTL+ +L+++ + + L +G +F
Sbjct: 274 --GDMEGRLFMLLLEKEEQMDGTVTLK-------DLRVELLGETSIAECLTYLDNGVVFV 324
Query: 346 ASEFGNHALYQFQAIGADPDVEASSSTLMETEEGFQPVFFQPRGLKNLVRIEQVESLMPI 405
S G+ L + + D + + S MET +L PI
Sbjct: 325 GSRLGDSQLVK---LNVDSNEQGSYVVAMET----------------------FTNLGPI 359
Query: 406 MDMRIANLFEEEAPQIFTLCGRGPRSSLRILRPGLAVSEMAVSQLPGVPSAVWTVKKNVN 465
+DM + +L + Q+ T G SLRI+R G+ + E A LPG+ +W ++ + N
Sbjct: 360 VDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGI-KGLWPLRSDPN 418
Query: 466 DEFDAYIVVSFNNATLVLSI-GETVEEVSDSGFLDTTPSLAVSLIGDDSLMQVHPSGIRH 524
E +V+SF T VL + GE VEE GF+D + + L+Q+ + +R
Sbjct: 419 RETYDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQTFFCGNVAHQQLIQITSASVRL 478
Query: 525 IREDGR--INEWRTPGKRTIVKVGSNRLQVVIALSGGELIYFEVDMTGQLLEVEKHEMSG 582
+ ++ + ++EW+ P + I N QVV+A+ G +Y+ +L ++ EM
Sbjct: 479 VSQEPKALVSEWKEPQAKNISVASCNSSQVVVAV--GRALYYLQIHPQELRQISHTEMEH 536
Query: 583 DVACLDIASVPEGRKRSRFLAVGSY-DNTIRILSLDPDDCM--QILSVQSVSSPPESLLF 639
+VACLDI + + S A+G + D + RIL L + + ++L + + P S+L
Sbjct: 537 EVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEII---PRSILM 593
Query: 640 LEVQASVGGEDGADHPASLFLNAGLQNGVLFRTVVDMVTGQLSDSRSRFLGLRPPKLFSV 699
++S H +L L +G LF +++ TG LSD + LG +P L +
Sbjct: 594 TTFESS--------H----YLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTF 641
Query: 700 VVGGRAAMLCLSSRPWLGYIHRGRFLLTPLSYETLEYAASFSSDQCVEGVVSVAGNALRV 759
+ S RP + Y + + + ++ + + Y +SD + + + L +
Sbjct: 642 RSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTI 701
Query: 760 FTIERLGETFNETALPLRYTPRRFVLQPKKKLMVIIET-----DQGALTAEEREAAKKEC 814
TI+ + + + +PL +PR+ Q + ++ + D T R +A +
Sbjct: 702 GTIDEI-QKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQA 760
Query: 815 FXXXXXXXXXXXXXXXXXXXXXENKYDPLSDEQYGYPKAESDKWVSCIRVLDPRSANTTC 874
+ +G + V + ++D +
Sbjct: 761 LSSSVSSSKLFSSSTAP------------HETSFG-----EEVEVHNLLIIDQHTFEVLH 803
Query: 875 LLELQDNEAAFSICTVNFHDKEHGTLLAVGTAKGLQFWPKRNIVAGYIHIYRFVEEGKSL 934
+ NE A S+ + K+ T VGTA + + + G I ++++ +GK L
Sbjct: 804 AHQFLQNEYALSLVSCKL-GKDPNTYFIVGTA--MVYPEEAEPKQGRIVVFQY-SDGK-L 858
Query: 935 ELLHKTQVEGIPLALCQFQGRLLAGIGPVLRLYDLGKKRLLRKCENKLFPNTIVSINTYR 994
+ + + +V+G ++ +F G+LLA I +RLY+ ++ +R N + + T
Sbjct: 859 QTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKDVRTECNHYNNIMALYLKTKG 918
Query: 995 DRIYVGDIQESFHFCKYRRDENQLYIFADDSVPRWLTAAHHIDFDTMAGADKFGNIYFVR 1054
D I VGD+ S Y+ E A D P W++A +D D GA+ N++ +
Sbjct: 919 DFILVGDLMRSVLLLAYKPMEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQ 978
Query: 1055 LPQDVSDEIEEDPTGGKIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLV------- 1107
+D + +E+ ++E+ FH+G+ V SLV
Sbjct: 979 --KDSAATTDEE----------------RQHLQEVGLFHLGEFVNVFCHGSLVMQNLGET 1020
Query: 1108 --PGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHMRQEHPPLCGRDHMAYRSAYF 1165
P G SV++GTV G +G + + S + ++ + + + +H +RS +
Sbjct: 1021 STPTQG-SVLFGTVNGMIGLVTSL-SESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHT 1078
Query: 1166 -----PVKDVIDGDLCEQFPTLSLDLQRKIADELDRTPGEILKK 1204
P IDGDL E F +S +++ L G +K+
Sbjct: 1079 ERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKR 1122
>pdb|2B5N|A Chain A, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|B Chain B, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|C Chain C, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|D Chain D, Crystal Structure Of The Ddb1 Bpb Domain
Length = 323
Score = 100 bits (249), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 85/336 (25%), Positives = 157/336 (46%), Gaps = 24/336 (7%)
Query: 436 LRPGLAVSEMAVSQLPGVPSAVWTVKKNVNDEFDAYIVVSFNNATLVLSI-GETVEEVSD 494
+R G+ + E A LPG+ +W ++ + N E +V+SF T VL + GE VEE
Sbjct: 4 MRNGIGIHEHASIDLPGI-KGLWPLRSDPNRETYDTLVLSFVGQTRVLMLNGEEVEETEL 62
Query: 495 SGFLDTTPSLAVSLIGDDSLMQVHPSGIRHIREDGR--INEWRTPGKRTIVKVGSNRLQV 552
GF+D + + L+Q+ + +R + ++ + ++EW+ P + I N QV
Sbjct: 63 MGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQV 122
Query: 553 VIALSGGELIYFEVDMTGQLLEVEKHEMSGDVACLDIASVPEGRKRSRFLAVGSY-DNTI 611
V+A+ G +Y+ +L ++ EM +VACLDI + + S A+G + D +
Sbjct: 123 VVAV--GRALYYLQIHPQELRQISHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISA 180
Query: 612 RILSLDPDDCM--QILSVQSVSSPPESLLFLEVQASVGGEDGADHPASLFLNAGLQNGVL 669
RIL L + + ++L + + P S+L ++S H +L L +G L
Sbjct: 181 RILKLPSFELLHKEMLGGEII---PRSILMTTFESS--------H----YLLCALGDGAL 225
Query: 670 FRTVVDMVTGQLSDSRSRFLGLRPPKLFSVVVGGRAAMLCLSSRPWLGYIHRGRFLLTPL 729
F +++ TG LSD + LG +P L + + S RP + Y + + + +
Sbjct: 226 FYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNV 285
Query: 730 SYETLEYAASFSSDQCVEGVVSVAGNALRVFTIERL 765
+ + + Y +SD + + + L + TI+ +
Sbjct: 286 NLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEI 321
>pdb|2HOY|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HOY|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HOZ|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HOZ|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HP1|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HP1|B Chain B, Inter-Subunit Signaling In Gsam
pdb|2HP2|A Chain A, Inter-Subunit Signaling In Gsam
pdb|2HP2|B Chain B, Inter-Subunit Signaling In Gsam
Length = 432
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 1071 KIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFS 1130
K+ E+G GAP +E ++ V D V S++ V G E+ M L M A++
Sbjct: 83 KVAMEKGTSFGAPCALENVLAEMVNDAVPSIEMVRFVNSGTEA-----CMAVLRIMRAYT 137
Query: 1131 SRDDVDFF 1138
RD + F
Sbjct: 138 GRDKIIKF 145
>pdb|3FQ7|A Chain A, Gabaculine Complex Of Gsam
pdb|3FQ7|B Chain B, Gabaculine Complex Of Gsam
pdb|3USF|A Chain A, Crystal Structure Of Dava-4
pdb|3USF|B Chain B, Crystal Structure Of Dava-4
Length = 427
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 1071 KIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFS 1130
K+ E+G GAP +E ++ V D V S++ V G E+ M L M A++
Sbjct: 78 KVAMEKGTSFGAPCALENVLAEMVNDAVPSIEMVRFVNSGTEA-----CMAVLRIMRAYT 132
Query: 1131 SRDDVDFF 1138
RD + F
Sbjct: 133 GRDKIIKF 140
>pdb|3FQ8|A Chain A, M248i Mutant Of Gsam
pdb|3FQ8|B Chain B, M248i Mutant Of Gsam
Length = 427
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 1071 KIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFS 1130
K+ E+G GAP +E ++ V D V S++ V G E+ M L M A++
Sbjct: 78 KVAMEKGTSFGAPCALENVLAEMVNDAVPSIEMVRFVNSGTEA-----CMAVLRIMRAYT 132
Query: 1131 SRDDVDFF 1138
RD + F
Sbjct: 133 GRDKIIKF 140
>pdb|2GSA|A Chain A, Crystal Structure Of Glutamate-1-Semialdehyde Aminomutase
(Aminotransferase, Wild-Type Form)
pdb|2GSA|B Chain B, Crystal Structure Of Glutamate-1-Semialdehyde Aminomutase
(Aminotransferase, Wild-Type Form)
pdb|4GSA|A Chain A, Crystal Structure Of Glutamate-1-semialdehyde Aminomutase
(aminotransferase) Reduced With Cyanoborohydrate
pdb|4GSA|B Chain B, Crystal Structure Of Glutamate-1-semialdehyde Aminomutase
(aminotransferase) Reduced With Cyanoborohydrate
pdb|3GSB|A Chain A, Crystal Structure Of Glutamate-1-Semialdehyde Aminomutase In
Complex With Gabaculine
pdb|3GSB|B Chain B, Crystal Structure Of Glutamate-1-Semialdehyde Aminomutase In
Complex With Gabaculine
Length = 432
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 1071 KIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFS 1130
K+ E+G GAP +E ++ V D V S++ V G E+ M L M A++
Sbjct: 83 KVAMEKGTSFGAPCALENVLAEMVNDAVPSIEMVRFVNSGTEA-----CMAVLRLMRAYT 137
Query: 1131 SRDDVDFF 1138
RD + F
Sbjct: 138 GRDKIIKF 145
>pdb|3FQA|A Chain A, Gabaculien Complex Of Gabaculine Resistant Gsam Version
pdb|3FQA|B Chain B, Gabaculien Complex Of Gabaculine Resistant Gsam Version
Length = 427
Score = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 1071 KIKWEQGKLNGAPNKMEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFS 1130
K+ E+G GAP +E ++ V D V S++ V G E+ M L M A++
Sbjct: 78 KVAMEKGTSFGAPCALENVLAEMVNDAVPSIEMVRFVNSGTEA-----CMAVLRLMRAYT 132
Query: 1131 SRDDVDFF 1138
RD + F
Sbjct: 133 GRDKIIKF 140
>pdb|1L1L|A Chain A, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|B Chain B, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|C Chain C, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|D Chain D, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
Length = 739
Score = 31.6 bits (70), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 1086 MEEIVQFHVGDVVTSLQKASLVPGGGESVIYGTVMGSLGAMLAFSSRDDVDFFSHLEMHM 1145
+ E++ G +T++ A + G++V+ G V S A LA S DD DF S +
Sbjct: 284 VNEVLNNKAGGRLTAVDAADICNLIGKAVVAGNVRRS--AELALGSNDDQDFISMKQDQE 341
Query: 1146 RQEHPPLCGRDHMAYRSAY 1164
+ H + +A SA+
Sbjct: 342 KLMHHRWASNNSVAVDSAF 360
>pdb|2AHS|A Chain A, Crystal Structure Of The Catalytic Domain Of Human
Tyrosine Receptor Phosphatase Beta
pdb|2AHS|B Chain B, Crystal Structure Of The Catalytic Domain Of Human
Tyrosine Receptor Phosphatase Beta
Length = 295
Score = 30.4 bits (67), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 559 GELIYFEVDMTGQLLEVEKHEMS--GDVACLDIASVPEGRKRSRFLAVGSYDNT-IRILS 615
G + + D + LL E E+ G DIA +PE R ++R+ + YD T +++ +
Sbjct: 14 GHFMKLQAD-SNYLLSKEYEELKDVGRNQSCDIALLPENRGKNRYNNILPYDATRVKLSN 72
Query: 616 LDPDDCMQILSVQSV 630
+D D C ++ +
Sbjct: 73 VDDDPCSDYINASYI 87
>pdb|2H02|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2H02|B Chain B, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2H04|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2I3R|A Chain A, Engineered Catalytic Domain Of Protein Tyrosine
Phosphatase Hptpbeta
pdb|2I3R|B Chain B, Engineered Catalytic Domain Of Protein Tyrosine
Phosphatase Hptpbeta
pdb|2I3U|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2I4E|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2I4E|B Chain B, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With Inhibitors
pdb|2I4G|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain In Complex With A Sulfamic Acid
(Soaking Experiment)
pdb|2I4H|A Chain A, Structural Studies Of Protein Tyrosine Phosphatase Beta
Catalytic Domain Co-Crystallized With A Sulfamic Acid
Inhibitor
pdb|2I5X|A Chain A, Engineering The Ptpbeta Catalytic Domain With Improved
Crystallization Properties
pdb|2I5X|B Chain B, Engineering The Ptpbeta Catalytic Domain With Improved
Crystallization Properties
Length = 313
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 559 GELIYFEVDMTGQLLEVEKHEMS--GDVACLDIASVPEGRKRSRFLAVGSYDNT-IRILS 615
G + + D + LL E E+ G DIA +PE R ++R+ + YD T +++ +
Sbjct: 30 GHFMKLQAD-SNYLLSKEYEELKDVGRNQSCDIALLPENRGKNRYNNILPYDATRVKLSN 88
Query: 616 LDPDDCMQILSVQSV 630
+D D C ++ +
Sbjct: 89 VDDDPCSDYINASYI 103
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
0.320 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,838,353
Number of Sequences: 62578
Number of extensions: 1522469
Number of successful extensions: 3637
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 3504
Number of HSP's gapped (non-prelim): 43
length of query: 1213
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1103
effective length of database: 8,089,757
effective search space: 8923001971
effective search space used: 8923001971
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)