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= 011155
(492 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UMV|A Chain A, Eukaryotic Class Ii Cpd Photolyase Structure Reveals A
Basis For Improved Uv-Tolerance In Plants
pdb|3UMV|B Chain B, Eukaryotic Class Ii Cpd Photolyase Structure Reveals A
Basis For Improved Uv-Tolerance In Plants
Length = 506
Score = 617 bits (1592), Expect = e-177, Method: Compositional matrix adjust.
Identities = 312/491 (63%), Positives = 371/491 (75%), Gaps = 16/491 (3%)
Query: 3 SLTPPSTA--------VQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQA 54
S++PP TA P R+RV+ G VVYWM RDQR+ DNWAL+HA A
Sbjct: 5 SVSPPRTAPGPANPSPAHPSRVRVIHPGGGKPGGP-VVYWMLRDQRLADNWALLHAAGLA 63
Query: 55 NKNNVPVAVAFNLFDQ--FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNI 112
+ P+AVAF LF + L A+ RQLGF+LRGLR L + F G AE I
Sbjct: 64 AASASPLAVAFALFPRPFLLSARRRQLGFLLRGLRRLAADAAARHLPFFLFTGGPAE--I 121
Query: 113 PNFVRECGASLLVTDFSPLREIRRCKDKICN---RVSDSVTIHEVDAHNVVPVWVASEKL 169
P V+ GAS LV DFSPLR +R D + R + V +H+VDAHNVVPVW AS K+
Sbjct: 122 PALVQRLGASTLVADFSPLRPVREALDAVVGDLRREAPGVAVHQVDAHNVVPVWTASAKM 181
Query: 170 EYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGW 229
EYSAKT RGK++K++ EYL+++P L + + +DWD++IA V + VPEI W
Sbjct: 182 EYSAKTFRGKVSKVMDEYLVEFPELPAVVPWDREQPEGVDWDALIARVCSEAENVPEIDW 241
Query: 230 CESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALE 289
CE GE+AA+E L GSKDGFLTKR+K+Y TDRN+P KPRALSGLSPYLHFG ISAQRCALE
Sbjct: 242 CEPGEEAAIEALLGSKDGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALE 301
Query: 290 ARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREH 349
A+K R L P+++D FLEEL+VRRELADNFC+YQP YDSL GAWEWARK+L DHA+DKREH
Sbjct: 302 AKKCRHLSPKSVDAFLEELVVRRELADNFCYYQPQYDSLSGAWEWARKTLMDHAADKREH 361
Query: 350 IYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLN 409
IYT+EQ E A+T DPLWNASQ+EMV++GKMHGFMRMYWAKKILEWT+GPEEAL+ AIYLN
Sbjct: 362 IYTREQLENAKTHDPLWNASQLEMVHHGKMHGFMRMYWAKKILEWTSGPEEALSTAIYLN 421
Query: 410 DKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKR 469
DKYEIDGRDP+GYVGCMWSICG+HDQGWKERPVFGKIRYMNY+GCKRKFDVD YI+YVKR
Sbjct: 422 DKYEIDGRDPSGYVGCMWSICGLHDQGWKERPVFGKIRYMNYAGCKRKFDVDAYISYVKR 481
Query: 470 IVGGTKKRRAD 480
+ G +KKR A+
Sbjct: 482 LAGQSKKRNAE 492
>pdb|2XRY|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei
pdb|2XRZ|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei In Complex With Intact Cpd-Lesion
pdb|2XRZ|B Chain B, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From
Methanosarcina Mazei In Complex With Intact Cpd-Lesion
Length = 482
Score = 411 bits (1056), Expect = e-115, Method: Compositional matrix adjust.
Identities = 228/478 (47%), Positives = 294/478 (61%), Gaps = 32/478 (6%)
Query: 4 LTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAV 63
L P + + P RIR LK G + GPVVYWM RDQR DNWAL+ + A + NVPV V
Sbjct: 14 LVPRGSHMNPKRIRALKSGK--QGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVV 71
Query: 64 AFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASL 123
F L D+FL A RQ FML+GL+ L+ ++ +I F +G+ + I FV++ A
Sbjct: 72 VFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRK-KIPSFFLRGDPGEKISRFVKDYNAGT 130
Query: 124 LVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKI--- 180
LVTDFSPLR + +K+ + +S + EVDAHNVVP W AS+K EY+A T R K+
Sbjct: 131 LVTDFSPLRIKNQWIEKVISGIS--IPFFEVDAHNVVPCWEASQKHEYAAHTFRPKLYAL 188
Query: 181 -------------NKLLPEYLIDYPMLEQPIEKW-TGTRQSIDWDSIIAAVLRKGAEVPE 226
N + PE M+E + TG + + A+L+ + E
Sbjct: 189 LPEFLEEFPELEPNSVTPELSAGAGMVETLSDVLETGVKALLP----ERALLKNKDPLFE 244
Query: 227 IGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRC 286
E GE AA +V+ + F+ RL +Y RN+P K LS LSPYLHFGQIS+QR
Sbjct: 245 PWHFEPGEKAAKKVM----ESFIADRLDSYGALRNDPTK-NMLSNLSPYLHFGQISSQRV 299
Query: 287 ALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDK 346
LE KA P + FL+E+++ +E++DNFC+Y P YD + WA++SL H +D
Sbjct: 300 VLEVEKAES-NPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDV 358
Query: 347 REHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAI 406
R HIYT E+FE +T DPLWNASQME++ GKMHG+ RMYWAKKILEW+ PE+AL IAI
Sbjct: 359 RSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYTRMYWAKKILEWSESPEKALEIAI 418
Query: 407 YLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYI 464
LND+YE+DGRDPNGY G WSI GVHD+ W ER V GKIRYM+Y GCKRKFDV YI
Sbjct: 419 CLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYI 476
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans
pdb|1OWM|A Chain A, Data1:dna Photolyase RECEIVED X-Rays Dose 1.2 Exp15
PhotonsMM2
pdb|1OWN|A Chain A, Data3:dna Photolyase RECEIVED X-Rays Dose 4.8 Exp15
PhotonsMM2
pdb|1OWO|A Chain A, Data4:photoreduced Dna Photolyase RECEIVED X-Rays Dose
1.2 Exp15 PhotonsMM2
pdb|1OWP|A Chain A, Data6:photoreduced Dna Pholyase RECEIVED X-Rays Dose 4.8
Exp15 PhotonsMM2
pdb|1QNF|A Chain A, Structure Of Photolyase
Length = 484
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 114/508 (22%), Positives = 191/508 (37%), Gaps = 119/508 (23%)
Query: 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG----AKARQLGFMLR 84
P+++W RD R+ DN L A Q+ + + F L Q L A AR + ++
Sbjct: 3 APILFWHRRDLRLSDNIGLAAARAQSAQ----LIGLFCLDPQILQSADMAPAR-VAYLQG 57
Query: 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV--TDFSP------------ 130
L+ LQ+ ++ L L QG+ + IP ++ A + D P
Sbjct: 58 CLQELQQRYQQAGSRLLLL-QGDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAA 116
Query: 131 -----LREIR------RCKDKICNRVSDSVTIHEVDAHN------VVPVWVASEKLEYSA 173
+R ++ D+I + + +++ N PV +E ++ S
Sbjct: 117 LKTAGIRAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQPKPTPVATPTELVDLSP 176
Query: 174 KTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESG 233
+ L + P L + P L+Q DWD E G
Sbjct: 177 EQL----TAIAPLLLSELPTLKQ---------LGFDWDGGFP--------------VEPG 209
Query: 234 EDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKA 293
E AA+ L+ F + + +Y RN P + SGLSP L FG I ++ A A
Sbjct: 210 ETAAIARLQE----FCDRAIADYDPQRNFPAE-AGTSGLSPALKFGAIGIRQAWQAASAA 264
Query: 294 RKL-----CPEAIDTFLEELIVRRELADNFCFYQPN-----YDSLKGAWEWARKSLKDHA 343
L +I + +EL RE + ++ P+ Y SL + W
Sbjct: 265 HALSRSDEARNSIRVWQQEL-AWREFYQHALYHFPSLADGPYRSLWQQFPW--------- 314
Query: 344 SDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAK-----KILEWTTGP 398
+ RE ++T + +AQT P+ +A+ ++ G MH RM A I++W G
Sbjct: 315 -ENREALFTA--WTQAQTGYPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWRRGE 371
Query: 399 EEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKF 458
+ + ++ +DG G WS G +P +R N + +KF
Sbjct: 372 QFFM--------QHLVDGDLAANNGGWQWSASS----GMDPKP----LRIFNPASQAKKF 415
Query: 459 DVDGYIAYVKRIVGGTKKRRADSLVSGK 486
D Y+KR + + L+SG+
Sbjct: 416 DATA--TYIKRWLPELRHVHPKDLISGE 441
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|B Chain B, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|C Chain C, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|D Chain D, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
Length = 474
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 114/508 (22%), Positives = 191/508 (37%), Gaps = 119/508 (23%)
Query: 29 GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLG----AKARQLGFMLR 84
P+++W RD R+ DN L A Q+ + + F L Q L A AR + ++
Sbjct: 2 APILFWHRRDLRLSDNIGLAAARAQSAQ----LIGLFCLDPQILQSADMAPAR-VAYLQG 56
Query: 85 GLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV--TDFSP------------ 130
L+ LQ+ ++ L L QG+ + IP ++ A + D P
Sbjct: 57 CLQELQQRYQQAGSRLLLL-QGDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAA 115
Query: 131 -----LREIR------RCKDKICNRVSDSVTIHEVDAHN------VVPVWVASEKLEYSA 173
+R ++ D+I + + +++ N PV +E ++ S
Sbjct: 116 LKTAGIRAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQPKPTPVATPTELVDLSP 175
Query: 174 KTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESG 233
+ L + P L + P L+Q DWD E G
Sbjct: 176 EQL----TAIAPLLLSELPTLKQ---------LGFDWDGGFP--------------VEPG 208
Query: 234 EDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKA 293
E AA+ L+ F + + +Y RN P + SGLSP L FG I ++ A A
Sbjct: 209 ETAAIARLQE----FCDRAIADYDPQRNFPAE-AGTSGLSPALKFGAIGIRQAWQAASAA 263
Query: 294 RKL-----CPEAIDTFLEELIVRRELADNFCFYQPN-----YDSLKGAWEWARKSLKDHA 343
L +I + +EL RE + ++ P+ Y SL + W
Sbjct: 264 HALSRSDEARNSIRVWQQEL-AWREFYQHALYHFPSLADGPYRSLWQQFPW--------- 313
Query: 344 SDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAK-----KILEWTTGP 398
+ RE ++T + +AQT P+ +A+ ++ G MH RM A I++W G
Sbjct: 314 -ENREALFTA--WTQAQTGYPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWRRGE 370
Query: 399 EEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKF 458
+ + ++ +DG G WS G +P +R N + +KF
Sbjct: 371 QFFM--------QHLVDGDLAANNGGWQWSASS----GMDPKP----LRIFNPASQAKKF 414
Query: 459 DVDGYIAYVKRIVGGTKKRRADSLVSGK 486
D Y+KR + + L+SG+
Sbjct: 415 DATA--TYIKRWLPELRHVHPKDLISGE 440
>pdb|3CVX|A Chain A, Drosophila Melanogaster (6-4) Photolyase H369m Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion
Length = 543
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 85/387 (21%), Positives = 154/387 (39%), Gaps = 35/387 (9%)
Query: 20 KQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNN-----VPVAVAFNLFDQFLGA 74
K G +D +R +V+W + R+ DN AL H AN P+ + ++
Sbjct: 20 KAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQV 79
Query: 75 KARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV--TDFSPLR 132
A + F+ + L L + + L F+ +G+ + P + +L TD P
Sbjct: 80 GANRWRFLQQTLEDLDNQLRKLNSRL-FVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYS 138
Query: 133 EIRRCKDKICNRVSDSVTIHEVDAHNVV-PVWVASEKLEYSAKTLRG--------KINKL 183
R + + ++ V + +H + P V ++ L + T + K+ K+
Sbjct: 139 VTRDAAVQKLAK-AEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPKV 197
Query: 184 L--PEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVL 241
L PE L + P P + + S +D L K E GE A+ +
Sbjct: 198 LGVPEKLKNMPT---PPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPGGETEALRRM 254
Query: 242 KGS-KDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEA 300
+ S KD R + P N L+P + + LSPYL FG +SA+ + ++ K P+
Sbjct: 255 EESLKDEIWVARFEK-PNTAPNSLEP-STTVLSPYLKFGCLSARLFNQKLKEIIKRQPKH 312
Query: 301 IDTFLEEL--IVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEK 358
+ + ++ RE +PN+D + G + ++H +H+ E +
Sbjct: 313 SQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQEHP----DHL---EAWTH 365
Query: 359 AQTADPLWNASQMEMVYNGKMHGFMRM 385
+T P +A ++ G +H RM
Sbjct: 366 GRTGYPFIDAIMRQLRQEGWIHHLARM 392
>pdb|3CVW|A Chain A, Drosophila Melanogaster (6-4) Photolyase H365n Mutant
Bound To Ds Dna With A T-T (6-4) Photolesion And
Cofactor F0
Length = 543
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 84/386 (21%), Positives = 153/386 (39%), Gaps = 35/386 (9%)
Query: 20 KQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNN-----VPVAVAFNLFDQFLGA 74
K G +D +R +V+W + R+ DN AL H AN P+ + ++
Sbjct: 20 KAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQV 79
Query: 75 KARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV--TDFSPLR 132
A + F+ + L L + + L F+ +G+ + P + +L TD P
Sbjct: 80 GANRWRFLQQTLEDLDNQLRKLNSRL-FVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYS 138
Query: 133 EIRRCKDKICNRVSDSVTIHEVDAHNVV-PVWVASEKLEYSAKTLRG--------KINKL 183
R + + ++ V + +H + P V ++ L + T + K+ K+
Sbjct: 139 VTRDAAVQKLAK-AEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPKV 197
Query: 184 L--PEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVL 241
L PE L + P P + + S +D L K E GE A+ +
Sbjct: 198 LGVPEKLKNMPT---PPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPGGETEALRRM 254
Query: 242 KGS-KDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEA 300
+ S KD R + P N L+P + + LSPYL FG +SA+ + ++ K P+
Sbjct: 255 EESLKDEIWVARFEK-PNTAPNSLEP-STTVLSPYLKFGCLSARLFNQKLKEIIKRQPKH 312
Query: 301 IDTFLEEL--IVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEK 358
+ + ++ RE +PN+D + G + ++H +H+ E +
Sbjct: 313 SQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQEHP----DHL---EAWTH 365
Query: 359 AQTADPLWNASQMEMVYNGKMHGFMR 384
+T P +A ++ G +H R
Sbjct: 366 GRTGYPFIDAIMRQLRQEGWIHNLAR 391
>pdb|3CVU|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion
pdb|3CVY|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Repaired
Ds Dna
pdb|2WB2|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Double
Stranded Dna Containing A T(6-4)c Photolesion
pdb|3CVV|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna
With A T-T (6-4) Photolesion And F0 Cofactor
pdb|2WQ6|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(Dewar)c Lesion
pdb|2WQ7|A Chain A, Structure Of The 6-4 Photolyase Of D. Melanogaster In
Complex With The Non-Natural N4-Methyl T(6-4)c Lesion
Length = 543
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 84/386 (21%), Positives = 153/386 (39%), Gaps = 35/386 (9%)
Query: 20 KQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNN-----VPVAVAFNLFDQFLGA 74
K G +D +R +V+W + R+ DN AL H AN P+ + ++
Sbjct: 20 KAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGILDWMQV 79
Query: 75 KARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLV--TDFSPLR 132
A + F+ + L L + + L F+ +G+ + P + +L TD P
Sbjct: 80 GANRWRFLQQTLEDLDNQLRKLNSRL-FVVRGKPAEVFPRIFKSWRVEMLTFETDIEPYS 138
Query: 133 EIRRCKDKICNRVSDSVTIHEVDAHNVV-PVWVASEKLEYSAKTLRG--------KINKL 183
R + + ++ V + +H + P V ++ L + T + K+ K+
Sbjct: 139 VTRDAAVQKLAK-AEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPKV 197
Query: 184 L--PEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVL 241
L PE L + P P + + S +D L K E GE A+ +
Sbjct: 198 LGVPEKLKNMPT---PPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPGGETEALRRM 254
Query: 242 KGS-KDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEA 300
+ S KD R + P N L+P + + LSPYL FG +SA+ + ++ K P+
Sbjct: 255 EESLKDEIWVARFEK-PNTAPNSLEP-STTVLSPYLKFGCLSARLFNQKLKEIIKRQPKH 312
Query: 301 IDTFLEEL--IVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEK 358
+ + ++ RE +PN+D + G + ++H +H+ E +
Sbjct: 313 SQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQEHP----DHL---EAWTH 365
Query: 359 AQTADPLWNASQMEMVYNGKMHGFMR 384
+T P +A ++ G +H R
Sbjct: 366 GRTGYPFIDAIMRQLRQEGWIHHLAR 391
>pdb|2IJG|X Chain X, Crystal Structure Of Cryptochrome 3 From Arabidopsis
Thaliana
pdb|2VTB|A Chain A, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|C Chain C, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|D Chain D, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|E Chain E, Structure Of Cryptochrome 3 - Dna Complex
pdb|2VTB|F Chain F, Structure Of Cryptochrome 3 - Dna Complex
Length = 526
Score = 37.4 bits (85), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 86/388 (22%), Positives = 141/388 (36%), Gaps = 69/388 (17%)
Query: 26 KKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPV------AVAFNLFDQFLGAKARQL 79
K +G + W D RV DN AL A ++ +PV F F A +
Sbjct: 38 KGKGVTILWFRNDLRVLDNDALYKAWSSSD-TILPVYCLDPRLFHTTHFFNFPKTGALRG 96
Query: 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLRE---IRR 136
GF++ L L++N+ + + + G+ E+ +P+ ++ GA + E + R
Sbjct: 97 GFLMECLVDLRKNLMKR-GLNLLIRSGKPEEILPSLAKDFGARTVFAHKETCSEEVDVER 155
Query: 137 CKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQ 196
++ RV +S + + W T+ K + LP + D P +
Sbjct: 156 LVNQGLKRVGNSTKLELI--------W---------GSTMYHKDD--LPFDVFDLPDVYT 196
Query: 197 PIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAME---------VLKGSKDG 247
K + SI + I L V + G + E +E + G G
Sbjct: 197 QFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVGGESAG 256
Query: 248 ------FLTKR--LKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPE 299
+ K+ LK Y RN L P + SP+L FG IS + E ++ K
Sbjct: 257 VGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWLAFGCISPRFIYEEVQRYEKERVA 316
Query: 300 AIDTF--LEELIVRREL------ADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIY 351
T+ L ELI R N F+ +++G W +K
Sbjct: 317 NNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNVQGKWSQDQKLF------------ 364
Query: 352 TKEQFEKAQTADPLWNASQMEMVYNGKM 379
E + A+T PL +A+ E+ G M
Sbjct: 365 --ESWRDAKTGYPLIDANMKELSTTGFM 390
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 86/388 (22%), Positives = 141/388 (36%), Gaps = 69/388 (17%)
Query: 26 KKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPV------AVAFNLFDQFLGAKARQL 79
K +G + W D RV DN AL A ++ +PV F F A +
Sbjct: 37 KGKGVTILWFRNDLRVLDNDALYKAWSSSD-TILPVYCLDPRLFHTTHFFNFPKTGALRG 95
Query: 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLRE---IRR 136
GF++ L L++N+ + + + G+ E+ +P+ ++ GA + E + R
Sbjct: 96 GFLMECLVDLRKNLMKR-GLNLLIRSGKPEEILPSLAKDFGARTVFAHKETCSEEVDVER 154
Query: 137 CKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQ 196
++ RV +S + + W T+ K + LP + D P +
Sbjct: 155 LVNQGLKRVGNSTKLELI--------W---------GSTMYHKDD--LPFDVFDLPDVYT 195
Query: 197 PIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAME---------VLKGSKDG 247
K + SI + I L V + G + E +E + G G
Sbjct: 196 QFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVGGESAG 255
Query: 248 ------FLTKR--LKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPE 299
+ K+ LK Y RN L P + SP+L FG IS + E ++ K
Sbjct: 256 VGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWLAFGCISPRFIYEEVQRYEKERVA 315
Query: 300 AIDTF--LEELIVRREL------ADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIY 351
T+ L ELI R N F+ +++G W +K
Sbjct: 316 NNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNVQGKWSQDQKLF------------ 363
Query: 352 TKEQFEKAQTADPLWNASQMEMVYNGKM 379
E + A+T PL +A+ E+ G M
Sbjct: 364 --ESWRDAKTGYPLIDANMKELSTTGFM 389
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 86/388 (22%), Positives = 140/388 (36%), Gaps = 69/388 (17%)
Query: 26 KKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPV------AVAFNLFDQFLGAKARQL 79
K +G + W D RV DN AL A ++ +PV F F A +
Sbjct: 38 KGKGVTILWFRNDLRVLDNDALYKAWSSSD-TILPVYCLDPRLFHTTHFFNFPKTGALRG 96
Query: 80 GFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLRE---IRR 136
GF++ L L++N+ + + + G+ E+ +P+ ++ GA + E + R
Sbjct: 97 GFLMECLVDLRKNLMKR-GLNLLIRSGKPEEILPSLAKDFGARTVFAHKETCSEEVDVER 155
Query: 137 CKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQ 196
++ RV +S + + W T+ K + LP + D P +
Sbjct: 156 LVNQGLKRVGNSTKLELI--------W---------GSTMYHKDD--LPFDVFDLPDVYT 196
Query: 197 PIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAME---------VLKGSKDG 247
K + SI + I L V + G + E +E + G G
Sbjct: 197 QFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVGGESAG 256
Query: 248 ------FLTKR--LKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPE 299
+ K+ LK Y RN L P + SP+L FG IS + E ++ K
Sbjct: 257 VGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWLAFGCISPRFIYEEVQRYEKERVA 316
Query: 300 AIDTF--LEELIVRREL------ADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIY 351
T+ L ELI R N F+ ++ G W +K
Sbjct: 317 NNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNVNGKWSQDQKLF------------ 364
Query: 352 TKEQFEKAQTADPLWNASQMEMVYNGKM 379
E + A+T PL +A+ E+ G M
Sbjct: 365 --ESWRDAKTGYPLIDANMKELSTTGFM 390
>pdb|1RU3|A Chain A, Crystal Structure Of The Monomeric Acetyl-Coa Synthase
From Carboxydothermus Hydrogenoformans
Length = 732
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 46/200 (23%), Positives = 79/200 (39%), Gaps = 15/200 (7%)
Query: 276 LHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWA 335
L +I+ ++ A + R+L EA+DT+ L+ + + C P L GA W
Sbjct: 478 LELREIARKKYAERDARLRELSDEAVDTYYSCLLCQSFAPTHVCIVSPERVGLCGAISW- 536
Query: 336 RKSLKDHASDKREHIYTKEQFEKAQTADPL---WNASQMEMVYNGKMHGFMRMYWAKKIL 392
L A+ + + K DP+ W + E +Y RM I+
Sbjct: 537 ---LDAKAAYEINPNGPNQPIPKEGLIDPVKGQWESFN-EYIYKNSQRTIERMNL-YTIM 591
Query: 393 EW---TTGPEEALAIAIYLNDKYEIDGRDPNGY--VGCMWSICGVHDQGWKERPVFGKIR 447
E+ + G EA+ + + + I R+ +G +G +S G + P F I
Sbjct: 592 EYPMTSCGCFEAIMAYLPELNGFMIVNREHSGMTPIGMTFSTLAGMVGGGTQTPGFMGIG 651
Query: 448 YMNYSGCKRKFDVDGYIAYV 467
+Y G ++ DG +A V
Sbjct: 652 -KSYIGSRKFVKADGGLARV 670
>pdb|3FY4|A Chain A, (6-4) Photolyase Crystal Structure
pdb|3FY4|B Chain B, (6-4) Photolyase Crystal Structure
pdb|3FY4|C Chain C, (6-4) Photolyase Crystal Structure
Length = 537
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 8/84 (9%)
Query: 253 LKNYPTDRNNP---LKPRALSGLSPYLHFGQISAQ---RCALEARKARKLCPEAIDTFLE 306
+ N+ + +P LKP A + +SPYL FG +S++ +C K K + L
Sbjct: 239 VANFEKPKGDPSAFLKP-ATTVMSPYLKFGCLSSRYFYQCLQNIYKDVKKHTSPPVSLLG 297
Query: 307 ELIVRRELADNFCFYQPNYDSLKG 330
+L+ RE F PN+D +KG
Sbjct: 298 QLLW-REFFYTTAFGTPNFDKMKG 320
>pdb|1YVG|A Chain A, Structural Analysis Of The Catalytic Domain Of Tetanus
Neurotoxin
Length = 468
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 345 DKREHIYT-KEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKK 390
D + IY K QF+K + N + +++YN M+GF + KK
Sbjct: 319 DSYKQIYQQKYQFDKDSNGQYIVNEDKFQILYNSIMYGFTEIELGKK 365
>pdb|1Z7H|A Chain A, 2.3 Angstrom Crystal Structure Of Tetanus Neurotoxin Light
Chain
Length = 447
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 345 DKREHIYT-KEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKK 390
D + IY K QF+K + N + +++YN M+GF + KK
Sbjct: 324 DSYKQIYQQKYQFDKDSNGQYIVNEDKFQILYNSIMYGFTEVELGKK 370
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.137 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,532,665
Number of Sequences: 62578
Number of extensions: 676773
Number of successful extensions: 1419
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1396
Number of HSP's gapped (non-prelim): 23
length of query: 492
length of database: 14,973,337
effective HSP length: 103
effective length of query: 389
effective length of database: 8,527,803
effective search space: 3317315367
effective search space used: 3317315367
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: 53 (25.0 bits)