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= 005723
(681 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U3C|A Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
Arabidopsis Thaliana
pdb|1U3D|A Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From
Arabidopsis Thaliana With Amppnp Bound
Length = 509
Score = 843 bits (2177), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 411/495 (83%), Positives = 444/495 (89%)
Query: 8 IVWFRRDLRVEDNPXXXXXXXXXXXXXXFIWAPEEEGPYYPGRVSRWWXXXXXXXXXXXX 67
IVWFRRDLRVEDNP F+WAPEEEG Y+PGRVSRWW
Sbjct: 15 IVWFRRDLRVEDNPALAAAVRAGPVIALFVWAPEEEGHYHPGRVSRWWLKNSLAQLDSSL 74
Query: 68 XXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDPLSLVRDHRAKEALTAQGIAVR 127
GT L+TKRSTDSV+SLL+VVK+TGA+Q+FFNHLYDPLSLVRDHRAK+ LTAQGIAVR
Sbjct: 75 RSLGTCLITKRSTDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVR 134
Query: 128 SFNADLLYEPWDVNDAQGQPFATFAAFWEKCLSMPFDPDAPLLPPKRINSGDMSRCPSDT 187
SFNADLLYEPW+V D G+PF+ FAAFWE+CLSMP+DP++PLLPPK+I SGD+S+C +D
Sbjct: 135 SFNADLLYEPWEVTDELGRPFSMFAAFWERCLSMPYDPESPLLPPKKIISGDVSKCVADP 194
Query: 188 LVFEDESEKGSNALLARAWSPGWSNADKALTTFINGPLIEYSKNRRKADSATTSFLSPHL 247
LVFED+SEKGSNALLARAWSPGWSN DKALTTFINGPL+EYSKNRRKADSATTSFLSPHL
Sbjct: 195 LVFEDDSEKGSNALLARAWSPGWSNGDKALTTFINGPLLEYSKNRRKADSATTSFLSPHL 254
Query: 248 HFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPYSHERP 307
HFGEVSVRKVFHLVRIKQV+WANEGN+AG+ESVNLFLKSIGLREYSRY+SFNHPYSHERP
Sbjct: 255 HFGEVSVRKVFHLVRIKQVAWANEGNEAGEESVNLFLKSIGLREYSRYISFNHPYSHERP 314
Query: 308 LLGHLKFFSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQ 367
LLGHLKFF W VDE YFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQ
Sbjct: 315 LLGHLKFFPWAVDENYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQ 374
Query: 368 LPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVR 427
LPWRWGMKYFWDTLLDADLESDALGWQYI+GT+PD R FDRIDNPQFEGYKFDPNGEYVR
Sbjct: 375 LPWRWGMKYFWDTLLDADLESDALGWQYITGTLPDSREFDRIDNPQFEGYKFDPNGEYVR 434
Query: 428 RWLPELARLPTEWIHHPWNAPESVLQAAGIELGSNYPFPIVRIDAAKCRLDEALSEMWQQ 487
RWLPEL+RLPT+WIHHPWNAPESVLQAAGIELGSNYP PIV +D AK RL EALS+MWQ
Sbjct: 435 RWLPELSRLPTDWIHHPWNAPESVLQAAGIELGSNYPLPIVGLDEAKARLHEALSQMWQL 494
Query: 488 EAASRAAIENGTEEG 502
EAASRAAIENG+EEG
Sbjct: 495 EAASRAAIENGSEEG 509
>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase
pdb|1DNP|B Chain B, Structure Of Deoxyribodipyrimidine Photolyase
Length = 471
Score = 189 bits (480), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 144/481 (29%), Positives = 222/481 (46%), Gaps = 37/481 (7%)
Query: 8 IVWFRRDLRVEDNPXXXXXX--XXXXXXXXFIWAPEEEGPYYPGRVSRWWXXXXXXXXXX 65
+VWFR+DLR+ DN +I P + +
Sbjct: 4 LVWFRQDLRLHDNLALAAACRNSSARVLALYIATPRQWATHNMSPRQAELINAQLNGLQI 63
Query: 66 XXXXXGTSLVTKRSTDSVSSLLEVVKATGA----TQLFFNHLYDPLSLVRDHRAKEALTA 121
G L+ + D V+S+ E+VK A T LF+N+ Y+ RD + AL
Sbjct: 64 ALAEKGIPLLFREVDDFVASV-EIVKQVCAENSVTHLFYNYQYEVNERARDVEVERAL-- 120
Query: 122 QGIAVRSFNADLLYEPWDVNDAQGQPFATFAAF---WEKCL--SMPFDPDAPLLPPKRIN 176
+ + F+ ++ P V + + F F W K L MP + PK +
Sbjct: 121 RNVVCEGFDDSVILPPGAVMTGNHEMYKVFTPFKNAWLKRLREGMP----ECVAAPKVRS 176
Query: 177 SGDMSRCPSDTLVFEDESEKGSNALLARAWSPGWSNADKALTTFINGPLIEYSKNRRKAD 236
SG + PS TL + +S ++ + A L F EY + R
Sbjct: 177 SGSIEPSPSITLNYPRQSFDTAHFPVEE------KAAIAQLRQFCQNGAGEYEQQRDFPA 230
Query: 237 SATTSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYM 296
TS LS L G +S R+ H + +Q + G AG +++L + RE+ R++
Sbjct: 231 VEGTSRLSASLATGGLSPRQCLHRLLAEQPQALDGG--AG----SVWLNELIWREFYRHL 284
Query: 297 SFNHP-YSHERPLLGHLKFFSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIR 355
HP RP + W + + +AW++G+TGYP+VDA MR+L +TGW+H+R+R
Sbjct: 285 ITYHPSLCKHRPFIAWTDRVQWQSNPAHLQAWQEGKTGYPIVDAAMRQLNSTGWMHNRLR 344
Query: 356 VVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFE 415
++ +SF VK L + WR G +YF L+D DL ++ GWQ+ + T D + RI NP +
Sbjct: 345 MITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTGTDAAPYFRIFNPTTQ 404
Query: 416 GYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESVLQAAGIELGSNYPFPIVRIDAAKC 475
G KFD GE++R+WLPEL +P + +H PW Q AG+ L +YP PIV A+
Sbjct: 405 GEKFDHEGEFIRQWLPELRDVPGKVVHEPWKWA----QKAGVTL--DYPQPIVEHKEARV 458
Query: 476 R 476
+
Sbjct: 459 Q 459
>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 = 159 bits (401), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 118/436 (27%), Positives = 192/436 (44%), Gaps = 22/436 (5%)
Query: 8 IVWFRRDLRVEDN-PXXXXXXXXXXXXXXFIWAPE--EEGPYYPGRVSRWWXXXXXXXXX 64
+ W RRDLR+ DN F P+ + P RV+ +
Sbjct: 6 LFWHRRDLRLSDNIGLAAARAQSAQLIGLFCLDPQILQSADMAPARVA--YLQGCLQELQ 63
Query: 65 XXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDPLSLVRDHRAKEALTAQGI 124
G+ L+ + D + ++ + A +++N +P RD + AL GI
Sbjct: 64 QRYQQAGSRLLLLQG-DPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAGI 122
Query: 125 AVRSFNADLLYEPWDVNDAQGQPFATFAAFWEKCLSMPFDPDAPLLPPKRINSGDMSRCP 184
LL+ P + G P++ + FW+ + P P P + ++
Sbjct: 123 RAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQP-KPTPVATPTELVDLSPEQLTA 181
Query: 185 SDTLVFEDESEKGSNALLARAW------SPGWSNADKALTTFINGPLIEYSKNRRKADSA 238
L+ SE + L W PG + A L F + + +Y R A
Sbjct: 182 IAPLLL---SELPTLKQLGFDWDGGFPVEPGETAAIARLQEFCDRAIADYDPQRNFPAEA 238
Query: 239 TTSFLSPHLHFGEVSVRKVFHLVRIKQ-VSWANEGNKAGDESVNLFLKSIGLREYSRYMS 297
TS LSP L FG + +R+ + +S ++E S+ ++ + + RE+ ++
Sbjct: 239 GTSGLSPALKFGAIGIRQAWQAASAAHALSRSDEARN----SIRVWQQELAWREFYQHAL 294
Query: 298 FNHPYSHERPLLGHLKFFSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVV 357
++ P + P + F W E F AW Q +TGYP+VDA MR+L TGW+H+R R++
Sbjct: 295 YHFPSLADGPYRSLWQQFPWENREALFTAWTQAQTGYPIVDAAMRQLTETGWMHNRCRMI 354
Query: 358 VSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGY 417
V+SF K L + WR G ++F L+D DL ++ GWQ+ + + D + RI NP +
Sbjct: 355 VASFLTKDLIIDWRRGEQFFMQHLVDGDLAANNGGWQWSASSGMDPKPL-RIFNPASQAK 413
Query: 418 KFDPNGEYVRRWLPEL 433
KFD Y++RWLPEL
Sbjct: 414 KFDATATYIKRWLPEL 429
>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 = 158 bits (400), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 118/436 (27%), Positives = 192/436 (44%), Gaps = 22/436 (5%)
Query: 8 IVWFRRDLRVEDN-PXXXXXXXXXXXXXXFIWAPE--EEGPYYPGRVSRWWXXXXXXXXX 64
+ W RRDLR+ DN F P+ + P RV+ +
Sbjct: 5 LFWHRRDLRLSDNIGLAAARAQSAQLIGLFCLDPQILQSADMAPARVA--YLQGCLQELQ 62
Query: 65 XXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDPLSLVRDHRAKEALTAQGI 124
G+ L+ + D + ++ + A +++N +P RD + AL GI
Sbjct: 63 QRYQQAGSRLLLLQG-DPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAGI 121
Query: 125 AVRSFNADLLYEPWDVNDAQGQPFATFAAFWEKCLSMPFDPDAPLLPPKRINSGDMSRCP 184
LL+ P + G P++ + FW+ + P P P + ++
Sbjct: 122 RAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQP-KPTPVATPTELVDLSPEQLTA 180
Query: 185 SDTLVFEDESEKGSNALLARAW------SPGWSNADKALTTFINGPLIEYSKNRRKADSA 238
L+ SE + L W PG + A L F + + +Y R A
Sbjct: 181 IAPLLL---SELPTLKQLGFDWDGGFPVEPGETAAIARLQEFCDRAIADYDPQRNFPAEA 237
Query: 239 TTSFLSPHLHFGEVSVRKVFHLVRIKQ-VSWANEGNKAGDESVNLFLKSIGLREYSRYMS 297
TS LSP L FG + +R+ + +S ++E S+ ++ + + RE+ ++
Sbjct: 238 GTSGLSPALKFGAIGIRQAWQAASAAHALSRSDEARN----SIRVWQQELAWREFYQHAL 293
Query: 298 FNHPYSHERPLLGHLKFFSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVV 357
++ P + P + F W E F AW Q +TGYP+VDA MR+L TGW+H+R R++
Sbjct: 294 YHFPSLADGPYRSLWQQFPWENREALFTAWTQAQTGYPIVDAAMRQLTETGWMHNRCRMI 353
Query: 358 VSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGY 417
V+SF K L + WR G ++F L+D DL ++ GWQ+ + + D + RI NP +
Sbjct: 354 VASFLTKDLIIDWRRGEQFFMQHLVDGDLAANNGGWQWSASSGMDPKPL-RIFNPASQAK 412
Query: 418 KFDPNGEYVRRWLPEL 433
KFD Y++RWLPEL
Sbjct: 413 KFDATATYIKRWLPEL 428
>pdb|1NP7|A Chain A, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
pdb|1NP7|B Chain B, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803
Cryptochrome
Length = 489
Score = 143 bits (361), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 135/488 (27%), Positives = 212/488 (43%), Gaps = 53/488 (10%)
Query: 8 IVWFRRDLRVEDN-PXXXXXXXXXXXXXXFIWAPEEEGPYYPGRV------SRWWXXXXX 60
+VWFR DLR+ D+ P + + P + + G S +
Sbjct: 9 LVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQ 68
Query: 61 XXXXXXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDPLSLVRDHRAKEALT 120
LVT + V + ++ K A ++++ L + + LT
Sbjct: 69 NLAESLQKVGNKLLVTTGLPEQV--IPQIAKQINAKTIYYHREVTQEELDVERNLVKQLT 126
Query: 121 AQGIAVRSFNADLLYEPWDVN-DAQGQP--FATFAAFWEK-------CLSMPFDPDAPLL 170
GI + + L P D+ Q P F F EK C P + LL
Sbjct: 127 ILGIEAKGYWGSTLCHPEDLPFSIQDLPDLFTKFRKDIEKKKISIRPCFFAP----SQLL 182
Query: 171 PPKRINSGDMSRCPSD---TLVFEDES----EKGSNALLARAWSPGWSNADKALTTFING 223
P I +++ P + + F+ S + G A LAR W + D+
Sbjct: 183 PSPNIKL-ELTAPPPEFFPQINFDHRSVLAFQGGETAGLARLQDYFW-HGDR-------- 232
Query: 224 PLIEYSKNRRKADSAT-TSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNL 282
L +Y + R A +S SP L G +S R ++ V+ E + ++S +
Sbjct: 233 -LKDYKETRNGMVGADYSSKFSPWLALGCLSPRFIYQEVK------RYEQERVSNDSTHW 285
Query: 283 FLKSIGLREYSRYMSFNHPYSHERPLLGHL--KFFSWVVDEGYFKAWRQGRTGYPLVDAG 340
+ + R++ R+++ Y ++ G L K F W D+ F+ WR G+TGYPLVDA
Sbjct: 286 LIFELLWRDFFRFVA--QKYGNKLFNRGGLLNKNFPWQEDQVRFELWRSGQTGYPLVDAN 343
Query: 341 MRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTI 400
MREL TG++ +R R V+SF K L + WRWG ++F L+D D+ S+ W Y +G
Sbjct: 344 MRELNLTGFMSNRGRQNVASFLCKNLGIDWRWGAEWFESCLIDYDVCSNWGNWNYTAGIG 403
Query: 401 PDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESVLQAAGIELG 460
D R F + P+ + ++DP G Y+R WLPEL LP + IH PW + + G++LG
Sbjct: 404 NDARDFRYFNIPK-QSQQYDPQGTYLRHWLPELKNLPGDKIHQPWLLSATEQKQWGVQLG 462
Query: 461 SNYPFPIV 468
+YP P V
Sbjct: 463 VDYPRPCV 470
>pdb|1IQR|A Chain A, Crystal Structure Of Dna Photolyase From Thermus
Thermophilus
pdb|1IQU|A Chain A, Crystal Structure Of Photolyase-Thymine Complex
pdb|2J07|A Chain A, Thermus Dna Photolyase With 8-Hdf Antenna Chromophore
pdb|2J08|A Chain A, Thermus Dna Photolyase With 8-Iod-Riboflavin Antenna
Chromophore
pdb|2J09|A Chain A, Thermus Dna Photolyase With Fmn Antenna Chromophore
Length = 420
Score = 139 bits (349), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 80/226 (35%), Positives = 116/226 (51%), Gaps = 11/226 (4%)
Query: 207 SPGWSNADKALTTFINGPLIEYSKNRRKADSATTSFLSPHLHFGEVSVRKVFHLVRIKQV 266
PG A L F+ L Y++ R + D S LSP+ G +S R
Sbjct: 176 EPGEEAALAGLRAFLEAKLPRYAEERDRLDGEGGSRLSPYFALGVLSPRLA--------- 226
Query: 267 SWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFSWVVDEGYFKA 326
A E + G E ++ + R++S ++ ++ P+ ERPL + F W DE F+A
Sbjct: 227 --AWEAERRGGEGARKWVAELLWRDFSYHLLYHFPWMAERPLDPRFQAFPWQEDEALFQA 284
Query: 327 WRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADL 386
W +G+TG PLVDA MREL ATG+L +R R+ + F VK L LPW+ + F LLD D
Sbjct: 285 WYEGKTGVPLVDAAMRELHATGFLSNRARMNAAQFAVKHLLLPWKRCEEAFRHLLLDGDR 344
Query: 387 ESDALGWQYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPE 432
+ GWQ+ G D + R+ NP +G + DP G +++RW PE
Sbjct: 345 AVNLQGWQWAGGLGVDAAPYFRVFNPVLQGERHDPEGRWLKRWAPE 390
>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 = 135 bits (341), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 142/532 (26%), Positives = 226/532 (42%), Gaps = 48/532 (9%)
Query: 2 SGRGCSIVWFRRDLRVEDNPXXXXXXXXXXXXX-XFIWAPE--EEGP--YYPGRVS---- 52
+G G S++WFR+ LRV DNP F+ P E P + PG
Sbjct: 3 TGSG-SLIWFRKGLRVHDNPALEYASKGSEFMYPVFVIDPHYMESDPSAFSPGSSRAGVN 61
Query: 53 --RWWXXXXXXXXXXXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDPLSLV 110
R+ LV K V L+ ++ +L F + DP
Sbjct: 62 RIRFLLESLKDLDSSLKKLGSRLLVFKGEPGEV--LVRCLQEWKVKRLCFEYDTDPYYQA 119
Query: 111 RDHRAKEALTAQGIAVRSFNADLLYEPWDVNDAQG-QPFATFAAFWE-----KCLSMPFD 164
D + K+ ++ G+ V S + L+ P + + G +P ++ +F + C
Sbjct: 120 LDVKVKDYASSTGVEVFSPVSHTLFNPAHIIEKNGGKPPLSYQSFLKVAGEPSCAKSELV 179
Query: 165 PDAPLLPP-KRINSGDMSRCPS-DTLVFEDESEKGSNALLARAWSP---GWSNADKALTT 219
LPP I + +S PS + L ++D+ + W+P G S A K LT
Sbjct: 180 MSYSSLPPIGDIGNLGISEVPSLEELGYKDDEQAD--------WTPFRGGESEALKRLTK 231
Query: 220 FINGPLIEYSKNRRKADSAT-----TSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNK 274
I+ + + K D + T+ +SP+L FG +S R + ++ + + K
Sbjct: 232 SISDKAWVANFEKPKGDPSAFLKPATTVMSPYLKFGCLSSRYFYQCLQ----NIYKDVKK 287
Query: 275 AGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFSWVVDEGYFKAWRQGRTGY 334
V+L L + RE+ +F P + K W D AWR G+TGY
Sbjct: 288 HTSPPVSL-LGQLLWREFFYTTAFGTPNFDKMKGNRICKQIPWNEDHAMLAAWRDGKTGY 346
Query: 335 PLVDAGMRELWATGWLHDRIRVVVSSFFVKV-LQLPWRWGMKYFWDTLLDADLESDALGW 393
P +DA M +L GW+H R V+ F + L + W G F L+D+D + W
Sbjct: 347 PWIDAIMVQLLKWGWMHHLARHCVACFLTRGDLFIHWEQGRDVFERLLIDSDWAINNGNW 406
Query: 394 QYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESVLQ 453
++S + F+RI +P G K+DP+G+Y+R +LP L +P ++I+ PW AP SV
Sbjct: 407 MWLSCS-SFFYQFNRIYSPISFGKKYDPDGKYIRHFLPVLKDMPKQYIYEPWTAPLSVQT 465
Query: 454 AAGIELGSNYPFPIVRIDAAKCRLDEALSEMWQQEAASRAAIENGTEEGLGD 505
A +G +YP P+V D+A E +M + A ++ EE L D
Sbjct: 466 KANCIVGKDYPKPMVLHDSAS---KECKRKMGEAYALNKKMDGKVDEENLRD 514
>pdb|2E0I|A Chain A, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|B Chain B, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|C Chain C, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
pdb|2E0I|D Chain D, Crystal Structure Of Archaeal Photolyase From Sulfolobus
Tokodaii With Two Fad Molecules: Implication Of A Novel
Light-Harvesting Cofactor
Length = 440
Score = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 70/200 (35%), Positives = 114/200 (57%), Gaps = 18/200 (9%)
Query: 243 LSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPY 302
LSPHL FG +S+R+ ++ + G E F++ + R++ +++ +P+
Sbjct: 216 LSPHLKFGTISMREAYY-------------TQKGKEE---FVRELYWRDFFTLLAYYNPH 259
Query: 303 SHERPLLGHLKFFSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFF 362
SW +E YF+AW++GRTGYP++DAGMR L +TG+++ R+R++V+ F
Sbjct: 260 VFGHCYRREYDNISWENNESYFEAWKEGRTGYPIIDAGMRMLNSTGYINGRVRMLVAFFL 319
Query: 363 VKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGYKFDPN 422
VKVL + WRWG +YF L+D D + WQ+I+ T D R+ NP + KFDP
Sbjct: 320 VKVLFVDWRWGERYFATKLVDYDPAINNGNWQWIASTGVD--YMFRVFNPWKQQEKFDPE 377
Query: 423 GEYVRRWLPELARLPTEWIH 442
++++ W+ EL +P IH
Sbjct: 378 AKFIKEWVEELKDVPPSIIH 397
>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 = 122 bits (305), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 125/498 (25%), Positives = 201/498 (40%), Gaps = 48/498 (9%)
Query: 2 SGRGCSIVWFRRDLRVEDNPXXXXXXXXXXXXXXFIWAPEEEGPYY--------PGRV-- 51
S R + WFR+ LR+ DNP F A G Y+ PG +
Sbjct: 26 SQRSTLVHWFRKGLRLHDNPALSHI---------FTAANAAPGRYFVRPIFILDPGILDW 76
Query: 52 -----SRWWXXXXXXXXXXXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDP 106
+RW S + + K+ L F +P
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 107 LSLVRDHRAKEALTAQGIAVRSFNADLLYEP-WDVNDAQGQPFATFAAFW--------EK 157
S+ RD ++ A+G+ V + + +Y P + G+ T+ F K
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPK 196
Query: 158 CLSMPFD-PDAPLLPPKRINSGDMSR--CPSDTLVFEDESEKGSNALLARAWSPGWSNAD 214
L +P + P P + D + CP+ + + E G N + +
Sbjct: 197 VLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPG-GETEALRRME 255
Query: 215 KALTTFINGPLIEYSKNRRKADSATTSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNK 274
++L I E + +T+ LSP+L FG +S R L K K
Sbjct: 256 ESLKDEIWVARFEKPNTAPNSLEPSTTVLSPYLKFGCLSAR----LFNQKLKEIIKRQPK 311
Query: 275 AGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFS--WVVDEGYFKAWRQGRT 332
V+L + + RE+ ++ P + +R +LG++ W + +AW GRT
Sbjct: 312 HSQPPVSL-IGQLMWREFYYTVAAAEP-NFDR-MLGNVYCMQIPWQEHPDHLEAWTHGRT 368
Query: 333 GYPLVDAGMRELWATGWLHDRIRVVVSSFFVKV-LQLPWRWGMKYFWDTLLDADLESDAL 391
GYP +DA MR+L GW+H R+ V+ F + L + W G + F LLD D +A
Sbjct: 369 GYPFIDAIMRQLRQEGWIHHLARMAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAG 428
Query: 392 GWQYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESV 451
W ++S + + F R+ +P G K DP G Y+R+++PEL++ P I+ PW A
Sbjct: 429 NWMWLSASAFFHQYF-RVYSPVAFGKKTDPQGHYIRKYVPELSKYPAGCIYEPWKASLVD 487
Query: 452 LQAAGIELGSNYPFPIVR 469
+A G LG++YP IV+
Sbjct: 488 QRAYGCVLGTDYPHRIVK 505
>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 = 121 bits (303), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 125/498 (25%), Positives = 201/498 (40%), Gaps = 48/498 (9%)
Query: 2 SGRGCSIVWFRRDLRVEDNPXXXXXXXXXXXXXXFIWAPEEEGPYY--------PGRV-- 51
S R + WFR+ LR+ DNP F A G Y+ PG +
Sbjct: 26 SQRSTLVHWFRKGLRLHDNPALSHI---------FTAANAAPGRYFVRPIFILDPGILDW 76
Query: 52 -----SRWWXXXXXXXXXXXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDP 106
+RW S + + K+ L F +P
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 107 LSLVRDHRAKEALTAQGIAVRSFNADLLYEP-WDVNDAQGQPFATFAAFW--------EK 157
S+ RD ++ A+G+ V + + +Y P + G+ T+ F K
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPK 196
Query: 158 CLSMPFD-PDAPLLPPKRINSGDMSR--CPSDTLVFEDESEKGSNALLARAWSPGWSNAD 214
L +P + P P + D + CP+ + + E G N + +
Sbjct: 197 VLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPG-GETEALRRME 255
Query: 215 KALTTFINGPLIEYSKNRRKADSATTSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNK 274
++L I E + +T+ LSP+L FG +S R L K K
Sbjct: 256 ESLKDEIWVARFEKPNTAPNSLEPSTTVLSPYLKFGCLSAR----LFNQKLKEIIKRQPK 311
Query: 275 AGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFS--WVVDEGYFKAWRQGRT 332
V+L + + RE+ ++ P + +R +LG++ W + +AW GRT
Sbjct: 312 HSQPPVSL-IGQLMWREFYYTVAAAEP-NFDR-MLGNVYCMQIPWQEHPDHLEAWTHGRT 368
Query: 333 GYPLVDAGMRELWATGWLHDRIRVVVSSFFVKV-LQLPWRWGMKYFWDTLLDADLESDAL 391
GYP +DA MR+L GW+H+ R V+ F + L + W G + F LLD D +A
Sbjct: 369 GYPFIDAIMRQLRQEGWIHNLARHAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAG 428
Query: 392 GWQYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESV 451
W ++S + + F R+ +P G K DP G Y+R+++PEL++ P I+ PW A
Sbjct: 429 NWMWLSASAFFHQYF-RVYSPVAFGKKTDPQGHYIRKYVPELSKYPAGCIYEPWKASLVD 487
Query: 452 LQAAGIELGSNYPFPIVR 469
+A G LG++YP IV+
Sbjct: 488 QRAYGCVLGTDYPHRIVK 505
>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 = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 125/498 (25%), Positives = 200/498 (40%), Gaps = 48/498 (9%)
Query: 2 SGRGCSIVWFRRDLRVEDNPXXXXXXXXXXXXXXFIWAPEEEGPYY--------PGRV-- 51
S R + WFR+ LR+ DNP F A G Y+ PG +
Sbjct: 26 SQRSTLVHWFRKGLRLHDNPALSHI---------FTAANAAPGRYFVRPIFILDPGILDW 76
Query: 52 -----SRWWXXXXXXXXXXXXXXXGTSLVTKRSTDSVSSLLEVVKATGATQLFFNHLYDP 106
+RW S + + K+ L F +P
Sbjct: 77 MQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFETDIEP 136
Query: 107 LSLVRDHRAKEALTAQGIAVRSFNADLLYEP-WDVNDAQGQPFATFAAFW--------EK 157
S+ RD ++ A+G+ V + + +Y P + G+ T+ F K
Sbjct: 137 YSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELVIAKNLGKAPITYQKFLGIVEQLKVPK 196
Query: 158 CLSMPFD-PDAPLLPPKRINSGDMSR--CPSDTLVFEDESEKGSNALLARAWSPGWSNAD 214
L +P + P P + D + CP+ + + E G N + +
Sbjct: 197 VLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNKFPG-GETEALRRME 255
Query: 215 KALTTFINGPLIEYSKNRRKADSATTSFLSPHLHFGEVSVRKVFHLVRIKQVSWANEGNK 274
++L I E + +T+ LSP+L FG +S R L K K
Sbjct: 256 ESLKDEIWVARFEKPNTAPNSLEPSTTVLSPYLKFGCLSAR----LFNQKLKEIIKRQPK 311
Query: 275 AGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFS--WVVDEGYFKAWRQGRT 332
V+L + + RE+ ++ P + +R +LG++ W + +AW GRT
Sbjct: 312 HSQPPVSL-IGQLMWREFYYTVAAAEP-NFDR-MLGNVYCMQIPWQEHPDHLEAWTHGRT 368
Query: 333 GYPLVDAGMRELWATGWLHDRIRVVVSSFFVKV-LQLPWRWGMKYFWDTLLDADLESDAL 391
GYP +DA MR+L GW+H R V+ F + L + W G + F LLD D +A
Sbjct: 369 GYPFIDAIMRQLRQEGWIHHLARHAVACFLTRGDLWISWEEGQRVFEQLLLDQDWALNAG 428
Query: 392 GWQYISGTIPDGRAFDRIDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESV 451
W ++S + + F R+ +P G K DP G Y+R+++PEL++ P I+ PW A
Sbjct: 429 NWMWLSASAFFHQYF-RVYSPVAFGKKTDPQGHYIRKYVPELSKYPAGCIYEPWKASLVD 487
Query: 452 LQAAGIELGSNYPFPIVR 469
+A G LG++YP IV+
Sbjct: 488 QRAYGCVLGTDYPHRIVK 505
>pdb|4GU5|A Chain A, Structure Of Full-Length Drosophila Cryptochrome
pdb|4GU5|B Chain B, Structure Of Full-Length Drosophila Cryptochrome
Length = 539
Score = 109 bits (272), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 78/249 (31%), Positives = 125/249 (50%), Gaps = 25/249 (10%)
Query: 243 LSPHLHFGEVSVRK----VFHLVRIKQVSWANEG-NKAGDESVNLFLKSIGLREYSRYMS 297
+S HL FG +SVR+ V L + Q+ G G + + REY MS
Sbjct: 266 MSAHLRFGCLSVRRFYWSVHDLFKNVQLRACVRGVQMTGGAHIT---GQLIWREYFYTMS 322
Query: 298 FNHPYSHERPLLGHLKFFS--WVV-DEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRI 354
N+P +++R + G+ S W +E ++WR G+TG+PL+D MR+L A GWLH +
Sbjct: 323 VNNP-NYDR-MEGNDICLSIPWAKPNENLLQSWRLGQTGFPLIDGAMRQLLAEGWLHHTL 380
Query: 355 RVVVSSFFVK-VLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDR----- 408
R V++F + L W G+++F LLDAD A W ++S + AF+R
Sbjct: 381 RNTVATFLTRGGLWQSWEHGLQHFLKYLLDADWSVCAGNWMWVSSS-----AFERLLDSS 435
Query: 409 -IDNPQFEGYKFDPNGEYVRRWLPELARLPTEWIHHPWNAPESVLQAAGIELGSNYPFPI 467
+ P + DP+G Y+++++PEL +P E++H PW + +G +YP I
Sbjct: 436 LVTCPVALAKRLDPDGTYIKQYVPELMNVPKEFVHEPWRMSAEQQEQYECLIGVHYPERI 495
Query: 468 VRIDAAKCR 476
+ + A R
Sbjct: 496 IDLSMAVKR 504
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 1 MSGRGCSIVWFRRDLRVEDNP 21
M+ RG +++WFR LR+ DNP
Sbjct: 1 MATRGANVIWFRHGLRLHDNP 21
>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 = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 104/207 (50%), Gaps = 17/207 (8%)
Query: 243 LSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPY 302
SP L FG +S R ++ V+ E + + S L + R+Y R++S
Sbjct: 289 FSPWLAFGCISPRFIYEEVQ------RYEKERVANNSTYWVLFELIWRDYFRFLSIKCGN 342
Query: 303 SHERPLLGHLKF-----FSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVV 357
S L HL W D+ F++WR +TGYPL+DA M+EL TG++ +R R +
Sbjct: 343 S-----LFHLGGPRNVQGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQI 397
Query: 358 VSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGY 417
V SF V+ + L WR G ++F LLD D S+ W Y +G D R DR + +
Sbjct: 398 VCSFLVRDMGLDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPRE-DRYFSIPKQAQ 456
Query: 418 KFDPNGEYVRRWLPELARLPTEWIHHP 444
+DP GEYV WL +L RLP E H P
Sbjct: 457 NYDPEGEYVAFWLQQLRRLPKEKRHWP 483
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 3 GRGCSIVWFRRDLRVEDN 20
G+G +I+WFR DLRV DN
Sbjct: 39 GKGVTILWFRNDLRVLDN 56
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 104/207 (50%), Gaps = 17/207 (8%)
Query: 243 LSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPY 302
SP L FG +S R ++ V+ E + + S L + R+Y R++S
Sbjct: 288 FSPWLAFGCISPRFIYEEVQ------RYEKERVANNSTYWVLFELIWRDYFRFLSIKCGN 341
Query: 303 SHERPLLGHLKF-----FSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVV 357
S L HL W D+ F++WR +TGYPL+DA M+EL TG++ +R R +
Sbjct: 342 S-----LFHLGGPRNVQGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQI 396
Query: 358 VSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGY 417
V SF V+ + L WR G ++F LLD D S+ W Y +G D R DR + +
Sbjct: 397 VCSFLVRDMGLDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPRE-DRYFSIPKQAQ 455
Query: 418 KFDPNGEYVRRWLPELARLPTEWIHHP 444
+DP GEYV WL +L RLP E H P
Sbjct: 456 NYDPEGEYVAFWLQQLRRLPKEKRHWP 482
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 3 GRGCSIVWFRRDLRVEDN 20
G+G +I+WFR DLRV DN
Sbjct: 38 GKGVTILWFRNDLRVLDN 55
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 105 bits (261), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 105/207 (50%), Gaps = 18/207 (8%)
Query: 243 LSPHLHFGEVSVRKVFHLVRIKQVSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPY 302
SP L FG +S R ++ V+ E + + S L + R+Y R++S
Sbjct: 289 FSPWLAFGCISPRFIYEEVQ------RYEKERVANNSTYWVLFELIWRDYFRFLSIKCGN 342
Query: 303 SHERPLLGHLKF-----FSWVVDEGYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVV 357
S L HL W D+ F++WR +TGYPL+DA M+EL TG++ +R R +
Sbjct: 343 S-----LFHLGGPRNVNGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQI 397
Query: 358 VSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGTIPDGRAFDRIDNPQFEGY 417
V SF V+ + L WR G ++F LLD D S+ W Y +G + D R DR + +
Sbjct: 398 VCSFLVRDMGLDWRMGAEWFETCLLDYDPCSNYGNWTYGAG-VNDPRE-DRYFSIPKQAQ 455
Query: 418 KFDPNGEYVRRWLPELARLPTEWIHHP 444
+DP GEYV WL +L RLP E H P
Sbjct: 456 NYDPEGEYVAFWLQQLRRLPKEKRHWP 482
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 3 GRGCSIVWFRRDLRVEDN 20
G+G +I+WFR DLRV DN
Sbjct: 39 GKGVTILWFRNDLRVLDN 56
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/163 (26%), Positives = 64/163 (39%), Gaps = 25/163 (15%)
Query: 206 WSPGWSNADKALTTFINGPLIEYSKNRRKADSATTSFLSPHLHFGEVSVRKVFHLVRIKQ 265
+ PG A K + +FI L Y R S LSP+LHFG++S ++V V +
Sbjct: 248 FEPGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAE 307
Query: 266 VSWANEGNKAGDESVNLFLKSIGLREYSRYMSFNHPYSHERPLLGHLKFFSWVVDE---- 321
+N G+K L K I + +N Y G F SW +
Sbjct: 308 ---SNPGSKKAFLDEILIWKEIS----DNFCYYNPGYD------GFESFPSWAKESLNAH 354
Query: 322 --------GYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRV 356
+ + G+T PL +A EL +TG +H R+
Sbjct: 355 RNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYTRM 397
>pdb|1H6Y|A Chain A, The Role Of Conserved Amino Acids In The Cleft Of The
C-Terminal Family 22 Carbohydrate Binding Module Of
Clostridium Thermocellum Xyn10b In Ligand Binding
pdb|1H6Y|B Chain B, The Role Of Conserved Amino Acids In The Cleft Of The
C-Terminal Family 22 Carbohydrate Binding Module Of
Clostridium Thermocellum Xyn10b In Ligand Binding
Length = 170
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 2/88 (2%)
Query: 181 SRCPSDTLVFEDESEKGSNALLARAWSPGWSNADKALT--TFINGPLIEYSKNRRKADSA 238
+R P++ L+ + KGS +LL R + W+ A +AL TF+ G +S + A
Sbjct: 24 ARGPAEVLLSGRTAYKGSESLLVRNRTAAWNGAQRALNPRTFVPGNTYCFSVVASFIEGA 83
Query: 239 TTSFLSPHLHFGEVSVRKVFHLVRIKQV 266
+++ L + + S + + + +K V
Sbjct: 84 SSTTFCMKLQYVDGSGTQRYDTIDMKTV 111
>pdb|1DYO|A Chain A, Xylan-Binding Domain From Cbm 22, Formally X6b Domain
pdb|1DYO|B Chain B, Xylan-Binding Domain From Cbm 22, Formally X6b Domain
Length = 160
Score = 33.1 bits (74), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 2/89 (2%)
Query: 180 MSRCPSDTLVFEDESEKGSNALLARAWSPGWSNADKALT--TFINGPLIEYSKNRRKADS 237
+R P++ L+ + KGS +LL R + W+ A +AL TF+ G +S +
Sbjct: 23 TARGPAEVLLSGRTAYKGSESLLVRNRTAAWNGAQRALNPRTFVPGNTYCFSVVASFIEG 82
Query: 238 ATTSFLSPHLHFGEVSVRKVFHLVRIKQV 266
A+++ L + + S + + + K V
Sbjct: 83 ASSTTFCXKLQYVDGSGTQRYDTIDXKTV 111
>pdb|1H6X|A Chain A, The Role Of Conserved Amino Acids In The Cleft Of The
C-Terminal Family 22 Carbohydrate Binding Module Of
Clostridium Thermocellum Xyn10b In Ligand Binding
Length = 170
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 41/85 (48%), Gaps = 2/85 (2%)
Query: 184 PSDTLVFEDESEKGSNALLARAWSPGWSNADKALT--TFINGPLIEYSKNRRKADSATTS 241
P++ L+ + KGS +LL R + W+ A +AL TF+ G +S + A+++
Sbjct: 27 PAEVLLSGRTAYKGSESLLVRNRTAAWNGAQRALNPRTFVPGNTYCFSVVASFIEGASST 86
Query: 242 FLSPHLHFGEVSVRKVFHLVRIKQV 266
L + + S + + + +K V
Sbjct: 87 TFCMKLQYVDGSGTQRYDTIDMKTV 111
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
0.318 0.134 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,777,522
Number of Sequences: 62578
Number of extensions: 805035
Number of successful extensions: 1564
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1498
Number of HSP's gapped (non-prelim): 36
length of query: 681
length of database: 14,973,337
effective HSP length: 105
effective length of query: 576
effective length of database: 8,402,647
effective search space: 4839924672
effective search space used: 4839924672
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)