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= 001655
(1036 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 1120 bits (2896), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 73 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 132
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 133 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 192
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 193 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPSPFGGAIII 251
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 252 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 311
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 312 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 371
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 372 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 431
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 432 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 490
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 491 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 549
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 550 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 609
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 610 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 669
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 670 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 729
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 730 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 789
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 790 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 849
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 850 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 909
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 910 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 965
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 966 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1025
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1026 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1086 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1145
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1146 DDLIKVVEELTRIH 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
Score = 1120 bits (2896), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 73 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 132
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 133 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 192
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 193 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPKPFGGAIII 251
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 252 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 311
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 312 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 371
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 372 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 431
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 432 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 490
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 491 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 549
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 550 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 609
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 610 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 669
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 670 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 729
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 730 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 789
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 790 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 849
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 850 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 909
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 910 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 965
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 966 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1025
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1026 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1086 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1145
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1146 DDLIKVVEELTRIH 1159
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 1119 bits (2895), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 54 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 113
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 114 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 173
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 174 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 232
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 233 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 292
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 293 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 352
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 353 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 412
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 413 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 471
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 472 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 530
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 531 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 590
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 591 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 650
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 651 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 710
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 711 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 770
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 771 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 830
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 831 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 890
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 891 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 946
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 947 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1006
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1007 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1066
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1067 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1126
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1127 DDLIKVVEELTRIH 1140
>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 = 1119 bits (2895), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 64 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 123
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 124 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 183
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 184 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 242
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 243 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 302
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 303 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 362
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 363 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 422
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 423 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 481
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 482 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 540
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 541 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 600
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 601 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 660
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 661 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 720
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 721 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 780
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 781 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 840
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 841 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 900
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 901 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 956
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 957 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1016
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1017 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1076
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1077 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1136
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1137 DDLIKVVEELTRIH 1150
>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 = 1119 bits (2895), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 72 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 131
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 132 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 191
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 192 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 250
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 251 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 310
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 311 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 370
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 371 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 430
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 431 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 489
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 490 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 548
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 549 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 608
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 609 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 668
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 669 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 728
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 729 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 788
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 789 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 848
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 849 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 908
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 909 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 964
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 965 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1024
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1025 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1084
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1085 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1144
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1145 DDLIKVVEELTRIH 1158
>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 = 1119 bits (2894), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 73 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 132
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 133 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 192
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 193 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 251
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 252 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 311
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 312 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 371
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 372 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 431
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 432 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 490
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 491 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 549
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 550 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 609
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 610 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 669
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 670 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 729
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 730 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 789
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 790 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 849
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 850 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 909
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 910 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 965
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 966 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1025
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1026 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1086 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1145
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1146 DDLIKVVEELTRIH 1159
>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 = 1118 bits (2893), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1094 (51%), Positives = 743/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 58 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 117
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 118 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 177
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 178 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 236
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 237 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 296
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 297 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 356
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 357 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 416
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 417 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 475
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 476 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 534
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 535 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 594
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 595 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 654
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 655 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 714
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 715 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 774
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 775 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 834
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 835 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 894
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 895 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 950
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 951 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1010
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1011 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1070
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1071 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1130
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1131 DDLIKVVEELTRIH 1144
>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 = 1117 bits (2890), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 564/1094 (51%), Positives = 742/1094 (67%), Gaps = 67/1094 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 73 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 132
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 133 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 192
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTY V+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 193 QAPTICFVYQDPQ-GRHVKTYAVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 251
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 252 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 311
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 312 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 371
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 372 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 431
Query: 353 LRSSTDDPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQV 412
LRS + D LV+SF+ +TR+L +N GF QT FC + + QL+Q+
Sbjct: 432 LRSDPNRETDDTLVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQI 490
Query: 413 TSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEVK 472
TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 491 TSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQIS 549
Query: 473 HAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPRS 532
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPRS
Sbjct: 550 HTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRS 609
Query: 533 VLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHVF 592
+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+VF
Sbjct: 610 ILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVF 669
Query: 593 AASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQKL 652
A SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQKL
Sbjct: 670 ACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQKL 729
Query: 653 HIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------- 681
HIR++PL E PR+IC+QE S+ F + S +
Sbjct: 730 HIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKL 789
Query: 682 --------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYYC 733
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 790 FSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 849
Query: 734 VGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQL 793
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++L
Sbjct: 850 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 909
Query: 794 YKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEERA 853
Y+W +EL++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE A
Sbjct: 910 YEWTTE----KELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIA 965
Query: 854 RDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVNR 913
RD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 966 RDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNV 1025
Query: 914 FRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGVG 972
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK VG
Sbjct: 1026 FCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVG 1085
Query: 973 GLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VSV 1022
+ H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1086 KIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREATA 1145
Query: 1023 EELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1146 DDLIKVVEELTRIH 1159
>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 = 1114 bits (2882), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1095 (51%), Positives = 745/1095 (68%), Gaps = 69/1095 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 54 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 113
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 114 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 173
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 174 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 232
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 233 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 292
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 293 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 352
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 353 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 412
Query: 353 LRSSTD-DPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQ 411
LRS + + +DT LV+SF+ +TR+L +N GF QT FC + + QL+Q
Sbjct: 413 LRSDPNRETYDT-LVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQ 470
Query: 412 VTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEV 471
+TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 471 ITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQI 529
Query: 472 KHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPR 531
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPR
Sbjct: 530 SHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPR 589
Query: 532 SVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHV 591
S+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+V
Sbjct: 590 SILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNV 649
Query: 592 FAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQK 651
FA SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQK
Sbjct: 650 FACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQK 709
Query: 652 LHIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------ 681
LHIR++PL E PR+IC+QE S+ F + S +
Sbjct: 710 LHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSK 769
Query: 682 ---------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYY 732
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 770 LFSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYF 829
Query: 733 CVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQ 792
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++
Sbjct: 830 IVGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVR 889
Query: 793 LYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEER 852
LY+W D +++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE
Sbjct: 890 LYEWTTEKD----VRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEI 945
Query: 853 ARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVN 912
ARD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 946 ARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVN 1005
Query: 913 RFRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGV 971
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK V
Sbjct: 1006 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSV 1065
Query: 972 GGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VS 1021
G + H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1066 GKIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREAT 1125
Query: 1022 VEELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1126 ADDLIKVVEELTRIH 1140
>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 = 1114 bits (2881), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1095 (51%), Positives = 745/1095 (68%), Gaps = 69/1095 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 72 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 131
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 132 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 191
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 192 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 250
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 251 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 310
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 311 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 370
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 371 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 430
Query: 353 LRSSTD-DPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQ 411
LRS + + +DT LV+SF+ +TR+L +N GF QT FC + + QL+Q
Sbjct: 431 LRSDPNRETYDT-LVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQ 488
Query: 412 VTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEV 471
+TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 489 ITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQI 547
Query: 472 KHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPR 531
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPR
Sbjct: 548 SHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPR 607
Query: 532 SVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHV 591
S+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+V
Sbjct: 608 SILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNV 667
Query: 592 FAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQK 651
FA SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQK
Sbjct: 668 FACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQK 727
Query: 652 LHIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------ 681
LHIR++PL E PR+IC+QE S+ F + S +
Sbjct: 728 LHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSK 787
Query: 682 ---------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYY 732
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 788 LFSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYF 847
Query: 733 CVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQ 792
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++
Sbjct: 848 IVGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVR 907
Query: 793 LYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEER 852
LY+W D +++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE
Sbjct: 908 LYEWTTEKD----VRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEI 963
Query: 853 ARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVN 912
ARD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 964 ARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVN 1023
Query: 913 RFRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGV 971
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK V
Sbjct: 1024 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSV 1083
Query: 972 GGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VS 1021
G + H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1084 GKIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREAT 1143
Query: 1022 VEELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1144 ADDLIKVVEELTRIH 1158
>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 = 1113 bits (2879), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 565/1095 (51%), Positives = 745/1095 (68%), Gaps = 69/1095 (6%)
Query: 3 DVPIYGRIATLELFRPHGEAQDFLFIATERYKFCVLQW--DAESSELITRAMGDVSDRIG 60
+V +YG+IA +ELFRP GE++D LFI T +Y C+L++ ES ++ITRA G+V DRIG
Sbjct: 57 EVGMYGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIG 116
Query: 61 RPTDNGQIGIIDPDCRLIGLHLYDGLFKVIPFDNKGQLKEAFNIRLEELQVLDIKFLYGC 120
RP++ G IGIIDP+CR+IGL LYDGLFKVIP D + +AFNIRLEEL V+D+KFLYGC
Sbjct: 117 RPSETGIIGIIDPECRMIGLRLYDGLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGC 176
Query: 121 AKPTIVVLYQDNKDARHVKTYEVALKDKDFVEGPWSQNNLDNGADLLIPVPPPLCGVLII 180
PTI +YQD + RHVKTYEV+L++K+F +GPW Q N++ A ++I VP P G +II
Sbjct: 177 QAPTICFVYQDPQ-GRHVKTYEVSLREKEFNKGPWKQENVEAEASMVIAVPEPFGGAIII 235
Query: 181 GEETIVYCSANAFKAIP---IRPSITKAYGRVDADGSRYXXXXXXXXXXXXVITHEKE-- 235
G+E+I Y + + + AI I+ S + RVD +GSRY ++ E++
Sbjct: 236 GQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMD 295
Query: 236 ---KVTGLKIELLGETSIASTISYLDNAVVYIGSSYGDSQLIKLNLQPDAKGSYVEVLER 292
+ L++ELLGETSIA ++YLDN VV++GS GDSQL+KLN+ + +GSYV +E
Sbjct: 296 GTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMET 355
Query: 293 YVNLGPIVDFCVVDLERQGQGQVVTCSGAYKDGSLRIVRNGIGINEQASVELQGIKGMWS 352
+ NLGPIVD CVVDLERQGQGQ+VTCSGA+K+GSLRI+RNGIGI+E AS++L GIKG+W
Sbjct: 356 FTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWP 415
Query: 353 LRSSTD-DPFDTFLVVSFISETRILAMNLXXXXXXXXXXGFCSQTQTLFCHDAIYNQLVQ 411
LRS + + +DT LV+SF+ +TR+L +N GF QT FC + + QL+Q
Sbjct: 416 LRSDPNRETYDT-LVLSFVGQTRVLMLN-GEEVEETELMGFVDDQQTFFCGNVAHQQLIQ 473
Query: 412 VTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQVLLATGGGHLVYLEIGDGILTEV 471
+TS SVRLVS + L +EWK P +++VA+ N+SQV++A G L YL+I L ++
Sbjct: 474 ITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRA-LYYLQIHPQELRQI 532
Query: 472 KHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISVRIFSLPDLNLITKEHLGGEIIPR 531
H ++E+E++CLDI P+G++ S + A+G+WTDIS RI LP L+ KE LGGEIIPR
Sbjct: 533 SHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPR 592
Query: 532 SVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDRKKVSLGTQPITLRTFSSKNTTHV 591
S+L+ FE YLLCALGDG L F LN++TG L+DRKKV+LGTQP LRTF S +TT+V
Sbjct: 593 SILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDRKKVTLGTQPTVLRTFRSLSTTNV 652
Query: 592 FAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAAFPDSLAIAKEGELTIGTIDDIQK 651
FA SDRPTVIYSSN KL++SNVNLKEV++MCP NS +PDSLA+A LTIGTID+IQK
Sbjct: 653 FACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNSTLTIGTIDEIQK 712
Query: 652 LHIRSIPLGEHPRRICHQEQSRTFAICSLK------------------------------ 681
LHIR++PL E PR+IC+QE S+ F + S +
Sbjct: 713 LHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSK 772
Query: 682 ---------NQSCAEESEMHFVRLLDDQTFEFISTYPLDTFEYGCSILSCSFSDDSNVYY 732
S EE E+H + ++D TFE + + EY S++SC D N Y+
Sbjct: 773 LFSSSTAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYF 832
Query: 733 CVGTAYVLPEENEPTKGRILVFIVEDGKLQLIAEKETKGAVYSLNAFNGKLLAAINQKIQ 792
VGTA V PEE EP +GRI+VF DGKLQ +AEKE KGAVYS+ FNGKLLA+IN ++
Sbjct: 833 IVGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVR 892
Query: 793 LYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIVVGDLMKSISLLIYKHEEGAIEER 852
LY+W D +++EC H+ +I+ALY++T+GDFI+VGDLM+S+ LL YK EG EE
Sbjct: 893 LYEWTTEKD----VRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEI 948
Query: 853 ARDYNANWMSAVEILDDDIYLGAENNFNLFTVRKNSEGATDEERGRLEVVGEYHLGEFVN 912
ARD+N NWMSAVEILDDD +LGAEN FNLF +K+S TDEER L+ VG +HLGEFVN
Sbjct: 949 ARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVN 1008
Query: 913 RFRHGSLVMR-LPDSDVGQIPTVIFGTVNGVIGVIASLPHEQYLFLEKLQTNLRKVIKGV 971
F HGSLVM+ L ++ +V+FGTVNG+IG++ SL Y L +Q L KVIK V
Sbjct: 1009 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSV 1068
Query: 972 GGLNHEQWRSFNNEKKTVDAKNFLDGDLIESFLDLSRTRMDEISKTMN----------VS 1021
G + H WRSF+ E+KT A F+DGDLIESFLD+SR +M E+ + +
Sbjct: 1069 GKIEHSFWRSFHTERKTEPATGFIDGDLIESFLDISRPKMQEVVANLQYDDGSGMKREAT 1128
Query: 1022 VEELCKRVEELTRLH 1036
++L K VEELTR+H
Sbjct: 1129 ADDLIKVVEELTRIH 1143
>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 = 355 bits (911), Expect = 7e-98, Method: Compositional matrix adjust.
Identities = 177/323 (54%), Positives = 233/323 (72%), Gaps = 4/323 (1%)
Query: 330 VRNGIGINEQASVELQGIKGMWSLRSSTD-DPFDTFLVVSFISETRILAMNLXXXXXXXX 388
+RNGIGI+E AS++L GIKG+W LRS + + +DT LV+SF+ +TR+L +N
Sbjct: 4 MRNGIGIHEHASIDLPGIKGLWPLRSDPNRETYDT-LVLSFVGQTRVLMLN-GEEVEETE 61
Query: 389 XXGFCSQTQTLFCHDAIYNQLVQVTSGSVRLVSSTSRELRNEWKSPPGYSVNVATANASQ 448
GF QT FC + + QL+Q+TS SVRLVS + L +EWK P +++VA+ N+SQ
Sbjct: 62 LMGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQ 121
Query: 449 VLLATGGGHLVYLEIGDGILTEVKHAQLEYEISCLDINPIGENPSYSQIAAVGMWTDISV 508
V++A G L YL+I L ++ H ++E+E++CLDI P+G++ S + A+G+WTDIS
Sbjct: 122 VVVAVGRA-LYYLQIHPQELRQISHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDISA 180
Query: 509 RIFSLPDLNLITKEHLGGEIIPRSVLLCAFEGISYLLCALGDGHLLNFLLNMKTGELTDR 568
RI LP L+ KE LGGEIIPRS+L+ FE YLLCALGDG L F LN++TG L+DR
Sbjct: 181 RILKLPSFELLHKEMLGGEIIPRSILMTTFESSHYLLCALGDGALFYFGLNIETGLLSDR 240
Query: 569 KKVSLGTQPITLRTFSSKNTTHVFAASDRPTVIYSSNKKLLYSNVNLKEVSHMCPFNSAA 628
KKV+LGTQP LRTF S +TT+VFA SDRPTVIYSSN KL++SNVNLKEV++MCP NS
Sbjct: 241 KKVTLGTQPTVLRTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDG 300
Query: 629 FPDSLAIAKEGELTIGTIDDIQK 651
+PDSLA+A LTIGTID+IQK
Sbjct: 301 YPDSLALANNSTLTIGTIDEIQK 323
>pdb|2AIZ|P Chain P, Solution Structure Of Peptidoglycan Associated Lipoprotein
From Haemophilus Influenza Bound To
Udp-N-Acetylmuramoyl-L-
Alanyl-D-Glutamyl-Meso-2,6-Diaminopimeloyl-D-Alanyl-D-
Alanine
Length = 134
Score = 33.1 bits (74), Expect = 0.74, Method: Composition-based stats.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 100 EAFNIRLEELQVLDIKFLYGCAKPTIVVLYQDNKDARHVKTYEVALKDK--DFVEGPWSQ 157
+ ++I E +Q+LD Y A P VL + N D R Y +AL + D V+G +
Sbjct: 37 DKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDERGTPEYNIALGQRRADAVKGYLAG 96
Query: 158 NNLDNG 163
+D G
Sbjct: 97 KGVDAG 102
>pdb|1ME8|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Rvp Bound
pdb|1ME9|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Imp Bound
pdb|1MEH|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Imp And Moa Bound
Length = 503
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 43/96 (44%), Gaps = 18/96 (18%)
Query: 786 AINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIV--------VGDLMKSI 837
AI+Q+ + DDGT HG +L L Q D+ + V D+M
Sbjct: 121 AISQRTTHNTVAVTDDGT--------PHGVLLGLVTQR--DYPIDLTQTETKVSDMMTPF 170
Query: 838 SLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYL 873
S L+ H++ + E + ++A+ I+DDD +L
Sbjct: 171 SKLVTAHQDTKLSEANKIIWEKKLNALPIIDDDQHL 206
>pdb|1ME7|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Rvp And Moa Bound
pdb|1MEI|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Xmp And Mycophenolic Acid
Bound
pdb|1MEW|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Xmp And Nad Bound
pdb|1AK5|A Chain A, Inosine Monophosphate Dehydrogenase (impdh) From
Tritrichomonas Foetus
Length = 503
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 43/96 (44%), Gaps = 18/96 (18%)
Query: 786 AINQKIQLYKWMLRDDGTRELQSECGHHGHILALYVQTRGDFIV--------VGDLMKSI 837
AI+Q+ + DDGT HG +L L Q D+ + V D+M
Sbjct: 121 AISQRTTHNTVAVTDDGT--------PHGVLLGLVTQR--DYPIDLTQTETKVSDMMTPF 170
Query: 838 SLLIYKHEEGAIEERARDYNANWMSAVEILDDDIYL 873
S L+ H++ + E + ++A+ I+DDD +L
Sbjct: 171 SKLVTAHQDTKLSEANKIIWEKKLNALPIIDDDQHL 206
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 0.138 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,444,269
Number of Sequences: 62578
Number of extensions: 1315280
Number of successful extensions: 3628
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 3503
Number of HSP's gapped (non-prelim): 26
length of query: 1036
length of database: 14,973,337
effective HSP length: 109
effective length of query: 927
effective length of database: 8,152,335
effective search space: 7557214545
effective search space used: 7557214545
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: 56 (26.2 bits)