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= 044814
(577 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 766 bits (1977), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 364/506 (71%), Positives = 417/506 (82%), Gaps = 14/506 (2%)
Query: 47 HCQVIPGADSREINHIVEETFGRY---TSKALKRNGKGVAIVWFRNDLRVLDNEALLKAW 103
H +P EI+ + +TF RY +S ++KR GKGV I+WFRNDLRVLDN+AL KAW
Sbjct: 4 HIHRVPALTEEEIDSVAIKTFERYALPSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAW 63
Query: 104 DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGK 163
SS+ +LPVYC+DPR TT+ F FPKTGALR FL+ECL DLRKNLM RGLNLLIR GK
Sbjct: 64 SSSDTILPVYCLDPRLFHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGK 123
Query: 164 PEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLI 223
PEEI+PSLAK FGA V+A KETCSEE++VERLV + L++V N +L+LI
Sbjct: 124 PEEILPSLAKDFGARTVFAHKETCSEEVDVERLVNQGLKRV----------GNSTKLELI 173
Query: 224 WGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLI 283
WG+TMYH DD+PFD LPDVYT FRKS+EAKC++R RIP S GP PSV DWG VP +
Sbjct: 174 WGSTMYHKDDLPFDVFDLPDVYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTL 233
Query: 284 EQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWL 343
E+L + +V++GMRFVGGESA +GRV EYFWKKDLLKVYKETRN MLGPDYSTKFSPWL
Sbjct: 234 EKLGVEPQEVTRGMRFVGGESAGVGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWL 293
Query: 344 ASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKL 403
A G ISPR+IYEEV+ YE+ERVAN+STYWVLFEL+WRDYFRF+S+K GNSLFHLGGPR +
Sbjct: 294 AFGCISPRFIYEEVQRYEKERVANNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNV 353
Query: 404 EYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMG 463
+ KWSQDQKLFESWRD TGYPLIDANMKELS TGFMSNRGRQI CSFLVRDMG+DWRMG
Sbjct: 354 QGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQIVCSFLVRDMGLDWRMG 413
Query: 464 AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLK 523
AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYD EGEYVA+WL QL+
Sbjct: 414 AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDPEGEYVAFWLQQLR 473
Query: 524 ALPKERRNFPGG-SYIEQIVSLKHGN 548
LPKE+R++PG Y++ +V LKHGN
Sbjct: 474 RLPKEKRHWPGRLMYMDTVVPLKHGN 499
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana
pdb|2J4D|B Chain B, Cryptochrome 3 From Arabidopsis Thaliana
Length = 525
Score = 765 bits (1976), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 364/506 (71%), Positives = 417/506 (82%), Gaps = 14/506 (2%)
Query: 47 HCQVIPGADSREINHIVEETFGRY---TSKALKRNGKGVAIVWFRNDLRVLDNEALLKAW 103
H +P EI+ + +TF RY +S ++KR GKGV I+WFRNDLRVLDN+AL KAW
Sbjct: 3 HIHRVPALTEEEIDSVAIKTFERYALPSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAW 62
Query: 104 DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGK 163
SS+ +LPVYC+DPR TT+ F FPKTGALR FL+ECL DLRKNLM RGLNLLIR GK
Sbjct: 63 SSSDTILPVYCLDPRLFHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGK 122
Query: 164 PEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLI 223
PEEI+PSLAK FGA V+A KETCSEE++VERLV + L++V N +L+LI
Sbjct: 123 PEEILPSLAKDFGARTVFAHKETCSEEVDVERLVNQGLKRV----------GNSTKLELI 172
Query: 224 WGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLI 283
WG+TMYH DD+PFD LPDVYT FRKS+EAKC++R RIP S GP PSV DWG VP +
Sbjct: 173 WGSTMYHKDDLPFDVFDLPDVYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTL 232
Query: 284 EQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWL 343
E+L + +V++GMRFVGGESA +GRV EYFWKKDLLKVYKETRN MLGPDYSTKFSPWL
Sbjct: 233 EKLGVEPQEVTRGMRFVGGESAGVGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWL 292
Query: 344 ASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKL 403
A G ISPR+IYEEV+ YE+ERVAN+STYWVLFEL+WRDYFRF+S+K GNSLFHLGGPR +
Sbjct: 293 AFGCISPRFIYEEVQRYEKERVANNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNV 352
Query: 404 EYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMG 463
+ KWSQDQKLFESWRD TGYPLIDANMKELS TGFMSNRGRQI CSFLVRDMG+DWRMG
Sbjct: 353 QGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQIVCSFLVRDMGLDWRMG 412
Query: 464 AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLK 523
AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYD EGEYVA+WL QL+
Sbjct: 413 AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDPEGEYVAFWLQQLR 472
Query: 524 ALPKERRNFPGG-SYIEQIVSLKHGN 548
LPKE+R++PG Y++ +V LKHGN
Sbjct: 473 RLPKEKRHWPGRLMYMDTVVPLKHGN 498
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex
Length = 525
Score = 758 bits (1956), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 363/506 (71%), Positives = 415/506 (82%), Gaps = 15/506 (2%)
Query: 47 HCQVIPGADSREINHIVEETFGRY---TSKALKRNGKGVAIVWFRNDLRVLDNEALLKAW 103
H +P EI+ + +TF RY +S ++KR GKGV I+WFRNDLRVLDN+AL KAW
Sbjct: 4 HIHRVPALTEEEIDSVAIKTFERYALPSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAW 63
Query: 104 DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGK 163
SS+ +LPVYC+DPR TT+ F FPKTGALR FL+ECL DLRKNLM RGLNLLIR GK
Sbjct: 64 SSSDTILPVYCLDPRLFHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGK 123
Query: 164 PEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLI 223
PEEI+PSLAK FGA V+A KETCSEE++VERLV + L++V N +L+LI
Sbjct: 124 PEEILPSLAKDFGARTVFAHKETCSEEVDVERLVNQGLKRV----------GNSTKLELI 173
Query: 224 WGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLI 283
WG+TMYH DD+PFD LPDVYT FRKS+EAKC++R RIP S GP PSV DWG VP +
Sbjct: 174 WGSTMYHKDDLPFDVFDLPDVYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTL 233
Query: 284 EQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWL 343
E+L + +V++GMRFVGGESA +GRV EYFWKKDLLKVYKETRN MLGPDYSTKFSPWL
Sbjct: 234 EKLGVEPQEVTRGMRFVGGESAGVGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWL 293
Query: 344 ASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKL 403
A G ISPR+IYEEV+ YE+ERVAN+STYWVLFEL+WRDYFRF+S+K GNSLFHLGGPR +
Sbjct: 294 AFGCISPRFIYEEVQRYEKERVANNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRNV 353
Query: 404 EYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMG 463
KWSQDQKLFESWRD TGYPLIDANMKELS TGFMSNRGRQI CSFLVRDMG+DWRMG
Sbjct: 354 NGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQIVCSFLVRDMGLDWRMG 413
Query: 464 AEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLK 523
AEWFETCLLDYDPCSNYGNWTYGAGV NDPREDRYFSIPKQAQNYD EGEYVA+WL QL+
Sbjct: 414 AEWFETCLLDYDPCSNYGNWTYGAGV-NDPREDRYFSIPKQAQNYDPEGEYVAFWLQQLR 472
Query: 524 ALPKERRNFPGG-SYIEQIVSLKHGN 548
LPKE+R++PG Y++ +V LKHGN
Sbjct: 473 RLPKEKRHWPGRLMYMDTVVPLKHGN 498
>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 = 462 bits (1188), Expect = e-130, Method: Compositional matrix adjust.
Identities = 226/453 (49%), Positives = 302/453 (66%), Gaps = 14/453 (3%)
Query: 82 VAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIE 141
+VWFRNDLR+ D+E L +A S + VYC DPR T H GF KTG R+ FL +
Sbjct: 7 TVLVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQT-HQGFAKTGPWRSNFLQQ 65
Query: 142 CLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNL 201
+ +L ++L G LL+ G PE++IP +AK A +Y +E EEL+VER + K L
Sbjct: 66 SVQNLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQL 125
Query: 202 QQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAK-CTVRG 260
+ + + K WG+T+ H +D+PF LPD++T FRK IE K ++R
Sbjct: 126 TILGIEA------------KGYWGSTLCHPEDLPFSIQDLPDLFTKFRKDIEKKKISIRP 173
Query: 261 CIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLL 320
C PS P P++ + P E + + F GGE+A L R+ +YFW D L
Sbjct: 174 CFFAPSQLLPSPNIKLELTAPPPEFFPQINFDHRSVLAFQGGETAGLARLQDYFWHGDRL 233
Query: 321 KVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWR 380
K YKETRN M+G DYS+KFSPWLA G +SPR+IY+EVK YE+ERV+NDST+W++FEL+WR
Sbjct: 234 KDYKETRNGMVGADYSSKFSPWLALGCLSPRFIYQEVKRYEQERVSNDSTHWLIFELLWR 293
Query: 381 DYFRFISLKYGNSLFHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFM 440
D+FRF++ KYGN LF+ GG + W +DQ FE WR G TGYPL+DANM+EL++TGFM
Sbjct: 294 DFFRFVAQKYGNKLFNRGGLLNKNFPWQEDQVRFELWRSGQTGYPLVDANMRELNLTGFM 353
Query: 441 SNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFS 500
SNRGRQ SFL +++GIDWR GAEWFE+CL+DYD CSN+GNW Y AG+GND R+ RYF+
Sbjct: 354 SNRGRQNVASFLCKNLGIDWRWGAEWFESCLIDYDVCSNWGNWNYTAGIGNDARDFRYFN 413
Query: 501 IPKQAQNYDREGEYVAYWLPQLKALPKERRNFP 533
IPKQ+Q YD +G Y+ +WLP+LK LP ++ + P
Sbjct: 414 IPKQSQQYDPQGTYLRHWLPELKNLPGDKIHQP 446
>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 = 169 bits (429), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 136/486 (27%), Positives = 211/486 (43%), Gaps = 74/486 (15%)
Query: 84 IVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECL 143
+ W R DLR+ DN L A S ++ ++C+DP+ Q+ R +L CL
Sbjct: 6 LFWHRRDLRLSDNIGLAAARAQSAQLIGLFCLDPQILQSA------DMAPARVAYLQGCL 59
Query: 144 ADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQ 203
+L++ G LL+ G P+ +IP LA+ A AVY + ++E R Q
Sbjct: 60 QELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQ-------DIEPYGRDRDGQ 112
Query: 204 VVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIR 263
V + ++ +W ++ D I + VY F K+ +A+
Sbjct: 113 VAAALKTAGIRAVQ-----LWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQPK------ 161
Query: 264 IPSSFGPPPSVVDWGSVPLIEQLELHSPKV--------------SKGMRFVGGESAALGR 309
P+ P +VD EQL +P + G GE+AA+ R
Sbjct: 162 -PTPVATPTELVDLSP----EQLTAIAPLLLSELPTLKQLGFDWDGGFPVEPGETAAIAR 216
Query: 310 VNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPR---YIYEEVKSYERERVA 366
+ E+ + Y RN ++ SP L G+I R + R A
Sbjct: 217 LQEFC--DRAIADYDPQRN-FPAEAGTSGLSPALKFGAIGIRQAWQAASAAHALSRSDEA 273
Query: 367 NDSTYWVLFELMWRDYFRFISLKYGNSLFHL----GGP-RKL--EYKWSQDQKLFESWRD 419
+S EL WR++ Y ++L+H GP R L ++ W + LF +W
Sbjct: 274 RNSIRVWQQELAWREF-------YQHALYHFPSLADGPYRSLWQQFPWENREALFTAWTQ 326
Query: 420 GCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSN 479
TGYP++DA M++L+ TG+M NR R I SFL +D+ IDWR G ++F L+D D +N
Sbjct: 327 AQTGYPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWRRGEQFFMQHLVDGDLAAN 386
Query: 480 YGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKAL-----------PKE 528
G W + A G DP+ R F+ QA+ +D Y+ WLP+L+ + P E
Sbjct: 387 NGGWQWSASSGMDPKPLRIFNPASQAKKFDATATYIKRWLPELRHVHPKDLISGEITPIE 446
Query: 529 RRNFPG 534
RR +P
Sbjct: 447 RRGYPA 452
>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 = 169 bits (428), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 136/486 (27%), Positives = 211/486 (43%), Gaps = 74/486 (15%)
Query: 84 IVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECL 143
+ W R DLR+ DN L A S ++ ++C+DP+ Q+ R +L CL
Sbjct: 5 LFWHRRDLRLSDNIGLAAARAQSAQLIGLFCLDPQILQSA------DMAPARVAYLQGCL 58
Query: 144 ADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQ 203
+L++ G LL+ G P+ +IP LA+ A AVY + ++E R Q
Sbjct: 59 QELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQ-------DIEPYGRDRDGQ 111
Query: 204 VVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIR 263
V + ++ +W ++ D I + VY F K+ +A+
Sbjct: 112 VAAALKTAGIRAVQ-----LWDQLLHSPDQILSGSGNPYSVYGPFWKNWQAQPK------ 160
Query: 264 IPSSFGPPPSVVDWGSVPLIEQLELHSPKV--------------SKGMRFVGGESAALGR 309
P+ P +VD EQL +P + G GE+AA+ R
Sbjct: 161 -PTPVATPTELVDLSP----EQLTAIAPLLLSELPTLKQLGFDWDGGFPVEPGETAAIAR 215
Query: 310 VNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPR---YIYEEVKSYERERVA 366
+ E+ + Y RN ++ SP L G+I R + R A
Sbjct: 216 LQEFC--DRAIADYDPQRN-FPAEAGTSGLSPALKFGAIGIRQAWQAASAAHALSRSDEA 272
Query: 367 NDSTYWVLFELMWRDYFRFISLKYGNSLFHL----GGP-RKL--EYKWSQDQKLFESWRD 419
+S EL WR++ Y ++L+H GP R L ++ W + LF +W
Sbjct: 273 RNSIRVWQQELAWREF-------YQHALYHFPSLADGPYRSLWQQFPWENREALFTAWTQ 325
Query: 420 GCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSN 479
TGYP++DA M++L+ TG+M NR R I SFL +D+ IDWR G ++F L+D D +N
Sbjct: 326 AQTGYPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWRRGEQFFMQHLVDGDLAAN 385
Query: 480 YGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKAL-----------PKE 528
G W + A G DP+ R F+ QA+ +D Y+ WLP+L+ + P E
Sbjct: 386 NGGWQWSASSGMDPKPLRIFNPASQAKKFDATATYIKRWLPELRHVHPKDLISGEITPIE 445
Query: 529 RRNFPG 534
RR +P
Sbjct: 446 RRGYPA 451
>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 = 162 bits (409), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 131/462 (28%), Positives = 212/462 (45%), Gaps = 33/462 (7%)
Query: 83 AIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQT---TYHFGFPKTGALRAQFL 139
+++WFR LRV DN AL A SE + PV+ +DP + ++ + G + G R +FL
Sbjct: 7 SLIWFRKGLRVHDNPALEYASKGSEFMYPVFVIDPHYMESDPSAFSPGSSRAGVNRIRFL 66
Query: 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRK 199
+E L DL +L G LL+ G+P E++ C +E V+RL +
Sbjct: 67 LESLKDLDSSLKKLGSRLLVFKGEPGEVL----------------VRCLQEWKVKRLCFE 110
Query: 200 N-----LQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRK-SIE 253
Q + + + ST + T I + P Y F K + E
Sbjct: 111 YDTDPYYQALDVKVKDYASSTGVEVFSPVSHTLFNPAHIIEKNGGKPPLSYQSFLKVAGE 170
Query: 254 AKCTVRGCIRIPSSFGPPPSVVDWG--SVPLIEQLELHSPKVSKGMRFVGGESAALGRVN 311
C + SS P + + G VP +E+L + + F GGES AL R+
Sbjct: 171 PSCAKSELVMSYSSLPPIGDIGNLGISEVPSLEELGYKDDEQADWTPFRGGESEALKRLT 230
Query: 312 EYFWKKDLLKVYKETRNE---MLGPDYSTKFSPWLASGSISPRYIYEEVKS-YERERVAN 367
+ K + +++ + + L P +T SP+L G +S RY Y+ +++ Y+ +
Sbjct: 231 KSISDKAWVANFEKPKGDPSAFLKPA-TTVMSPYLKFGCLSSRYFYQCLQNIYKDVKKHT 289
Query: 368 DSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLI 427
+L +L+WR++F + N G + W++D + +WRDG TGYP I
Sbjct: 290 SPPVSLLGQLLWREFFYTTAFGTPNFDKMKGNRICKQIPWNEDHAMLAAWRDGKTGYPWI 349
Query: 428 DANMKELSMTGFMSNRGRQIACSFLVR-DMGIDWRMGAEWFETCLLDYDPCSNYGNWTYG 486
DA M +L G+M + R FL R D+ I W G + FE L+D D N GNW +
Sbjct: 350 DAIMVQLLKWGWMHHLARHCVACFLTRGDLFIHWEQGRDVFERLLIDSDWAINNGNWMWL 409
Query: 487 AGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKE 528
+ + +R +S + YD +G+Y+ ++LP LK +PK+
Sbjct: 410 SCSSFFYQFNRIYSPISFGKKYDPDGKYIRHFLPVLKDMPKQ 451
>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase
pdb|1DNP|B Chain B, Structure Of Deoxyribodipyrimidine Photolyase
Length = 471
Score = 154 bits (390), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 133/457 (29%), Positives = 218/457 (47%), Gaps = 48/457 (10%)
Query: 84 IVWFRNDLRVLDNEALLKAW-DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIEC 142
+VWFR DLR+ DN AL A +SS VL +Y PR Q H P+ +A+ +
Sbjct: 4 LVWFRQDLRLHDNLALAAACRNSSARVLALYIATPR--QWATHNMSPR----QAELINAQ 57
Query: 143 LADLRKNLMNRGLNLLIRH-----GKPEEIIPSLAKSFGAHAVYA-QKETCSEELNVERL 196
L L+ L +G+ LL R E + A++ H Y Q E +VE
Sbjct: 58 LNGLQIALAEKGIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQYEVNERARDVE-- 115
Query: 197 VRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKC 256
V + L+ VV + D S P ++ G + PF ++ L R+ + +C
Sbjct: 116 VERALRNVV--CEGFDDSVILPPGAVMTGNHEMYKVFTPFKNAWL----KRLREGM-PEC 168
Query: 257 TVRGCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVS-KGMRFVGGESAALGRVNEYFW 315
+R S P PS+ L+ P+ S F E AA+ ++ ++
Sbjct: 169 VAAPKVRSSGSIEPSPSIT------------LNYPRQSFDTAHFPVEEKAAIAQLRQFC- 215
Query: 316 KKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
++ Y++ R+ + +++ S LA+G +SPR + + + + + + L
Sbjct: 216 -QNGAGEYEQQRD-FPAVEGTSRLSASLATGGLSPRQCLHRLLAEQPQALDGGAGSVWLN 273
Query: 376 ELMWRDYFRFISLKYGNSL-----FHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDAN 430
EL+WR+++R + + Y SL F R +W + ++W++G TGYP++DA
Sbjct: 274 ELIWREFYRHL-ITYHPSLCKHRPFIAWTDR---VQWQSNPAHLQAWQEGKTGYPIVDAA 329
Query: 431 MKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVG 490
M++L+ TG+M NR R I SFLV+D+ IDWR G +F + L+D D +N G W + A G
Sbjct: 330 MRQLNSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTG 389
Query: 491 NDPRED-RYFSIPKQAQNYDREGEYVAYWLPQLKALP 526
D R F+ Q + +D EGE++ WLP+L+ +P
Sbjct: 390 TDAAPYFRIFNPTTQGEKFDHEGEFIRQWLPELRDVP 426
>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 = 146 bits (369), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 122/447 (27%), Positives = 198/447 (44%), Gaps = 60/447 (13%)
Query: 83 AIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIEC 142
I FR DLR+ DN L A + V+PV+ DPR P F+I
Sbjct: 3 CIFIFRRDLRLEDNTGLNYALSECDRVIPVFIADPRQLINN-----PYKSEFAVSFMINS 57
Query: 143 LADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQ 202
L +L L +G L + G+ E+++ A+Y ++ ++ + +RK +
Sbjct: 58 LLELDDELRKKGSRLNVFFGEAEKVVSRFFNK--VDAIYVNEDYTPFSISRDEKIRKVCE 115
Query: 203 QVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCI 262
+ + ++ + P+ +++H H + Y +K VR
Sbjct: 116 ENGIEFKAYEDYLLTPK-------SLFH-------HRNFTSFYNEV-----SKVKVREPE 156
Query: 263 RIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLLKV 322
+ SF S ++ + +++E SP G R E L N F ++D
Sbjct: 157 TMEGSFDVTDSSMNVDFLLTFKKIE--SPLFRGGRR----EGLYLLHRNVDFRRRD---- 206
Query: 323 YKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDY 382
Y N + + SP L G+IS R Y K E + EL WRD+
Sbjct: 207 YPAENN-------NYRLSPHLKFGTISMREAYYTQKGKEE----------FVRELYWRDF 249
Query: 383 FRFISLKYGNSLFHLGGPRKLEY---KWSQDQKLFESWRDGCTGYPLIDANMKELSMTGF 439
F ++ Y +F G + EY W ++ FE+W++G TGYP+IDA M+ L+ TG+
Sbjct: 250 FTLLAY-YNPHVF--GHCYRREYDNISWENNESYFEAWKEGRTGYPIIDAGMRMLNSTGY 306
Query: 440 MSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPREDRYF 499
++ R R + FLV+ + +DWR G +F T L+DYDP N GNW + A G D R F
Sbjct: 307 INGRVRMLVAFFLVKVLFVDWRWGERYFATKLVDYDPAINNGNWQWIASTGVD-YMFRVF 365
Query: 500 SIPKQAQNYDREGEYVAYWLPQLKALP 526
+ KQ + +D E +++ W+ +LK +P
Sbjct: 366 NPWKQQEKFDPEAKFIKEWVEELKDVP 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 = 130 bits (328), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 122/479 (25%), Positives = 204/479 (42%), Gaps = 45/479 (9%)
Query: 70 YTSKALKRNGKGVAIVWFRNDLRVLDNEALLKAWDSSE------MVLPVYCVDPRHSQTT 123
Y L + + + WFR LR+ DN AL + ++ V P++ +DP
Sbjct: 18 YKKAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGI---- 73
Query: 124 YHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183
+ + GA R +FL + L DL L L + GKP E+ P + KS+ + +
Sbjct: 74 --LDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFE 131
Query: 184 KETCSEELNVERLVRKNLQQVVLSSQSNDKSTNH-PQLKLIWGTTMYHLDDIPFDHSSLP 242
+ + + V+K + + +++ T + P+L I + P
Sbjct: 132 TDIEPYSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELV------------IAKNLGKAP 179
Query: 243 DVYTHFRKSIEAKCTVRGCIRIPSSF----GPPPSVVDWGS-----VPLIEQLELHSPKV 293
Y F +E + V + +P PP V+ P ++QL + P+
Sbjct: 180 ITYQKFLGIVE-QLKVPKVLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQL-VKRPEE 237
Query: 294 SKGMRFVGGESAALGRVNEYFWKKDLLKVYK----ETRNEMLGPDYSTKFSPWLASGSIS 349
+F GGE+ AL R+ E KD + V + T L P +T SP+L G +S
Sbjct: 238 LGPNKFPGGETEALRRMEESL--KDEIWVARFEKPNTAPNSLEPS-TTVLSPYLKFGCLS 294
Query: 350 PRYIYEEVKSY-ERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWS 408
R +++K +R+ + ++ +LMWR+++ ++ N LG ++ W
Sbjct: 295 ARLFNQKLKEIIKRQPKHSQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQ 354
Query: 409 QDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVR-DMGIDWRMGAEWF 467
+ E+W G TGYP IDA M++L G++ N R FL R D+ I W G F
Sbjct: 355 EHPDHLEAWTHGRTGYPFIDAIMRQLRQEGWIHNLARHAVACFLTRGDLWISWEEGQRVF 414
Query: 468 ETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKALP 526
E LLD D N GNW + + + R +S + D +G Y+ ++P+L P
Sbjct: 415 EQLLLDQDWALNAGNWMWLSASAFFHQYFRVYSPVAFGKKTDPQGHYIRKYVPELSKYP 473
>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 = 129 bits (323), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 121/479 (25%), Positives = 204/479 (42%), Gaps = 45/479 (9%)
Query: 70 YTSKALKRNGKGVAIVWFRNDLRVLDNEALLKAWDSSE------MVLPVYCVDPRHSQTT 123
Y L + + + WFR LR+ DN AL + ++ V P++ +DP
Sbjct: 18 YKKAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGI---- 73
Query: 124 YHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183
+ + GA R +FL + L DL L L + GKP E+ P + KS+ + +
Sbjct: 74 --LDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFE 131
Query: 184 KETCSEELNVERLVRKNLQQVVLSSQSNDKSTNH-PQLKLIWGTTMYHLDDIPFDHSSLP 242
+ + + V+K + + +++ T + P+L I + P
Sbjct: 132 TDIEPYSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELV------------IAKNLGKAP 179
Query: 243 DVYTHFRKSIEAKCTVRGCIRIPSSF----GPPPSVVDWGS-----VPLIEQLELHSPKV 293
Y F +E + V + +P PP V+ P ++QL + P+
Sbjct: 180 ITYQKFLGIVE-QLKVPKVLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQL-VKRPEE 237
Query: 294 SKGMRFVGGESAALGRVNEYFWKKDLLKVYK----ETRNEMLGPDYSTKFSPWLASGSIS 349
+F GGE+ AL R+ E KD + V + T L P +T SP+L G +S
Sbjct: 238 LGPNKFPGGETEALRRMEESL--KDEIWVARFEKPNTAPNSLEPS-TTVLSPYLKFGCLS 294
Query: 350 PRYIYEEVKSY-ERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWS 408
R +++K +R+ + ++ +LMWR+++ ++ N LG ++ W
Sbjct: 295 ARLFNQKLKEIIKRQPKHSQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQ 354
Query: 409 QDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVR-DMGIDWRMGAEWF 467
+ E+W G TGYP IDA M++L G++ + R FL R D+ I W G F
Sbjct: 355 EHPDHLEAWTHGRTGYPFIDAIMRQLRQEGWIHHLARHAVACFLTRGDLWISWEEGQRVF 414
Query: 468 ETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKALP 526
E LLD D N GNW + + + R +S + D +G Y+ ++P+L P
Sbjct: 415 EQLLLDQDWALNAGNWMWLSASAFFHQYFRVYSPVAFGKKTDPQGHYIRKYVPELSKYP 473
>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 = 128 bits (322), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 121/479 (25%), Positives = 204/479 (42%), Gaps = 45/479 (9%)
Query: 70 YTSKALKRNGKGVAIVWFRNDLRVLDNEALLKAWDSSE------MVLPVYCVDPRHSQTT 123
Y L + + + WFR LR+ DN AL + ++ V P++ +DP
Sbjct: 18 YKKAGLMDSQRSTLVHWFRKGLRLHDNPALSHIFTAANAAPGRYFVRPIFILDPGI---- 73
Query: 124 YHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183
+ + GA R +FL + L DL L L + GKP E+ P + KS+ + +
Sbjct: 74 --LDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFE 131
Query: 184 KETCSEELNVERLVRKNLQQVVLSSQSNDKSTNH-PQLKLIWGTTMYHLDDIPFDHSSLP 242
+ + + V+K + + +++ T + P+L I + P
Sbjct: 132 TDIEPYSVTRDAAVQKLAKAEGVRVETHCSHTIYNPELV------------IAKNLGKAP 179
Query: 243 DVYTHFRKSIEAKCTVRGCIRIPSSF----GPPPSVVDWGS-----VPLIEQLELHSPKV 293
Y F +E + V + +P PP V+ P ++QL + P+
Sbjct: 180 ITYQKFLGIVE-QLKVPKVLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQL-VKRPEE 237
Query: 294 SKGMRFVGGESAALGRVNEYFWKKDLLKVYK----ETRNEMLGPDYSTKFSPWLASGSIS 349
+F GGE+ AL R+ E KD + V + T L P +T SP+L G +S
Sbjct: 238 LGPNKFPGGETEALRRMEESL--KDEIWVARFEKPNTAPNSLEPS-TTVLSPYLKFGCLS 294
Query: 350 PRYIYEEVKSY-ERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWS 408
R +++K +R+ + ++ +LMWR+++ ++ N LG ++ W
Sbjct: 295 ARLFNQKLKEIIKRQPKHSQPPVSLIGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPWQ 354
Query: 409 QDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVR-DMGIDWRMGAEWF 467
+ E+W G TGYP IDA M++L G++ + R FL R D+ I W G F
Sbjct: 355 EHPDHLEAWTHGRTGYPFIDAIMRQLRQEGWIHHLARMAVACFLTRGDLWISWEEGQRVF 414
Query: 468 ETCLLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKALP 526
E LLD D N GNW + + + R +S + D +G Y+ ++P+L P
Sbjct: 415 EQLLLDQDWALNAGNWMWLSASAFFHQYFRVYSPVAFGKKTDPQGHYIRKYVPELSKYP 473
>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 = 119 bits (298), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 73/221 (33%), Positives = 112/221 (50%), Gaps = 9/221 (4%)
Query: 302 GESAALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYE 361
GE AAL + + K L Y E R+ + G + ++ SP+ A G +SPR + ++E
Sbjct: 178 GEEAALAGLRAFLEAK--LPRYAEERDRLDG-EGGSRLSPYFALGVLSPR-----LAAWE 229
Query: 362 RERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWSQDQKLFESWRDGC 421
ER + + EL+WRD+ + + PR + W +D+ LF++W +G
Sbjct: 230 AERRGGEGARKWVAELLWRDFSYHLLYHFPWMAERPLDPRFQAFPWQEDEALFQAWYEGK 289
Query: 422 TGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSNYG 481
TG PL+DA M+EL TGF+SNR R A F V+ + + W+ E F LLD D N
Sbjct: 290 TGVPLVDAAMRELHATGFLSNRARMNAAQFAVKHLLLPWKRCEEAFRHLLLDGDRAVNLQ 349
Query: 482 NWTYGAGVGNDPRED-RYFSIPKQAQNYDREGEYVAYWLPQ 521
W + G+G D R F+ Q + +D EG ++ W P+
Sbjct: 350 GWQWAGGLGVDAAPYFRVFNPVLQGERHDPEGRWLKRWAPE 390
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/102 (34%), Positives = 52/102 (50%), Gaps = 10/102 (9%)
Query: 81 GVAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLI 140
G +VW R DLR+ D+ ALL+A +V + +DP + +TT P+ R + +
Sbjct: 2 GPLLVWHRGDLRLHDHPALLEALARGPVV-GLVVLDPNNLKTT-----PR----RRAWFL 51
Query: 141 ECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYA 182
E + LR+ RG L + G P E +P A+ A AVYA
Sbjct: 52 ENVRALREAYRARGGALWVLEGLPWEKVPEAARRLKAKAVYA 93
>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 = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 134/478 (28%), Positives = 206/478 (43%), Gaps = 69/478 (14%)
Query: 84 IVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECL 143
IVWFR DLRV DN AL A + V+ ++ P + YH G + +L L
Sbjct: 15 IVWFRRDLRVEDNPALAAAVRAGP-VIALFVWAPEE-EGHYH-----PGRVSRWWLKNSL 67
Query: 144 ADLRKNLMNRGLNLLIRHGKPEEIIPSL---AKSFGAHAVYAQKETCSEELNVERLVRKN 200
A L +L + G L+ + + + + SL KS GA ++ + + LVR +
Sbjct: 68 AQLDSSLRSLGTCLITK--RSTDSVASLLDVVKSTGASQIF-----FNHLYDPLSLVRDH 120
Query: 201 LQQVVLSSQS-NDKSTNHPQLKLIWGTTMYHLDDI--PFDHSSLPDVYTHFRKSIEAKCT 257
+ VL++Q +S N L W T D++ PF ++ F +
Sbjct: 121 RAKDVLTAQGIAVRSFNADLLYEPWEVT----DELGRPFS------MFAAFWER------ 164
Query: 258 VRGCIRIP----SSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVN-- 311
C+ +P S PP ++ + + KG + + + G N
Sbjct: 165 ---CLSMPYDPESPLLPPKKIISGDVSKCVADPLVFEDDSEKGSNALLARAWSPGWSNGD 221
Query: 312 ---EYFWKKDLLKVYKETRNEMLGPDYSTKF-SPWLASGSISPRYIYEEVK------SYE 361
F LL+ K R +T F SP L G +S R ++ V+ + E
Sbjct: 222 KALTTFINGPLLEYSKNRRK---ADSATTSFLSPHLHFGEVSVRKVFHLVRIKQVAWANE 278
Query: 362 RERVANDSTYWVLFELMWRDYFRFISLKYGNS-----LFHLGGPRKLEYKWSQDQKLFES 416
+S L + R+Y R+IS + S L HL + W+ D+ F++
Sbjct: 279 GNEAGEESVNLFLKSIGLREYSRYISFNHPYSHERPLLGHLKF-----FPWAVDENYFKA 333
Query: 417 WRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDP 476
WR G TGYPL+DA M+EL TG++ +R R + SF V+ + + WR G ++F LLD D
Sbjct: 334 WRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADL 393
Query: 477 CSNYGNWTYGAGVGNDPRE-DRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFP 533
S+ W Y G D RE DR + + +D GEYV WLP+L LP + + P
Sbjct: 394 ESDALGWQYITGTLPDSREFDRIDNPQFEGYKFDPNGEYVRRWLPELSRLPTDWIHHP 451
>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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 52/169 (30%), Positives = 83/169 (49%), Gaps = 4/169 (2%)
Query: 376 ELMWRDYFRFISLKYGNSLFHLGGPRKLEYKWSQ-DQKLFESWRDGCTGYPLIDANMKEL 434
+L+WR+YF +S+ N G L W++ ++ L +SWR G TG+PLID M++L
Sbjct: 311 QLIWREYFYTMSVNNPNYDRMEGNDICLSIPWAKPNENLLQSWRLGQTGFPLIDGAMRQL 370
Query: 435 SMTGFMSNRGRQIACSFLVR-DMGIDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDP 493
G++ + R +FL R + W G + F LLD D GNW + + +
Sbjct: 371 LAEGWLHHTLRNTVATFLTRGGLWQSWEHGLQHFLKYLLDADWSVCAGNWMWVSSSAFER 430
Query: 494 REDRYF-SIP-KQAQNYDREGEYVAYWLPQLKALPKERRNFPGGSYIEQ 540
D + P A+ D +G Y+ ++P+L +PKE + P EQ
Sbjct: 431 LLDSSLVTCPVALAKRLDPDGTYIKQYVPELMNVPKEFVHEPWRMSAEQ 479
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 14/113 (12%)
Query: 80 KGVAIVWFRNDLRVLDNEALLKAW---DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRA 136
+G ++WFR+ LR+ DN ALL A D ++PV+ D + G G R
Sbjct: 4 RGANVIWFRHGLRLHDNPALLAALADKDQGIALIPVFIFDGESA------GTKNVGYNRM 57
Query: 137 QFLIECLADLRKNLM----NRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKE 185
+FL++ L D+ L RG LL+ G+P I L + H + +++
Sbjct: 58 RFLLDSLQDIDDQLQAATDGRG-RLLVFEGEPAYIFRRLHEQVRLHRICIEQD 109
>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 = 35.8 bits (81), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 49/111 (44%), Gaps = 15/111 (13%)
Query: 73 KALK--RNGKGVAIVWFRNDLRVLDNEALL----KAWDSSEMVLPVYCVDPRHSQTTYHF 126
+ALK + G G + W D R DN ALL A +++ V+ V+C+
Sbjct: 27 RALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPVVVVFCLTDE-------- 78
Query: 127 GFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGA 177
F + G + +F+++ L +L +L + + G P E I K + A
Sbjct: 79 -FLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNA 128
>pdb|2WP7|A Chain A, Crystal Structure Of Desumoylase(Duf862)
Length = 168
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 35/142 (24%), Positives = 56/142 (39%), Gaps = 28/142 (19%)
Query: 219 QLKLIWGTTMY-HLDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDW 277
QL+ IW T++ H D+ F S + + CT G + GPP SVVD
Sbjct: 32 QLEGIWHTSIVVHKDEFFFGSSGI------------SSCTPGGTL-----LGPPDSVVDV 74
Query: 278 GSVPLIEQLELHSPKVSKGMRFVGGESAAL---------GRVNEYFWKKDLLKVYKETRN 328
G+ + E++ L S G GE+ L V ++ + + + +
Sbjct: 75 GNTEVTEEIFLEY-LSSLGESLFRGEAYNLFEHNCNTFSNEVAQFLTGRKIPSYITDLPS 133
Query: 329 EMLGPDYSTKFSPWLASGSISP 350
E+L + P+L S I P
Sbjct: 134 EVLSTPFGQALRPFLDSIQIQP 155
>pdb|1A6R|A Chain A, Gal6 (Yeast Bleomycin Hydrolase) Mutant C73a
Length = 471
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 167 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 226
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 227 EQMQREIFRLMSL 239
>pdb|2E01|A Chain A, Crystal Structure Of H369a Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
>pdb|2DZZ|A Chain A, Crystal Structure Of N392v Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
>pdb|2DZY|A Chain A, Crystal Structure Of N392a Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
>pdb|3GCB|A Chain A, Gal6 (Yeast Bleomycin Hydrolase) Mutant C73aDELTAK454
Length = 470
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 167 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 226
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 227 EQMQREIFRLMSL 239
>pdb|2E02|A Chain A, Crystal Structure Of H369l Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
>pdb|1GCB|A Chain A, Gal6, Yeast Bleomycin Hydrolase Dna-Binding Protease
(Thiol)
Length = 454
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 150 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 209
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 210 EQMQREIFRLMSL 222
>pdb|2E00|A Chain A, Crystal Structure Of N392l Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
>pdb|2E03|A Chain A, Crystal Structure Of Nq67e Mutant Of Yeast Bleomycin
Hydrolase
Length = 457
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 318 DLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLF 375
+L+K Y ++ G P +T W + + R E +++ +ER A+DS L
Sbjct: 154 NLVKKYGLIPKDLYGDLPYSTTASRKWNSLLTTKLREFAETLRTALKERSADDSIIVTLR 213
Query: 376 ELMWRDYFRFISL 388
E M R+ FR +SL
Sbjct: 214 EQMQREIFRLMSL 226
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 0.136 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,612,207
Number of Sequences: 62578
Number of extensions: 838349
Number of successful extensions: 1676
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1608
Number of HSP's gapped (non-prelim): 41
length of query: 577
length of database: 14,973,337
effective HSP length: 104
effective length of query: 473
effective length of database: 8,465,225
effective search space: 4004051425
effective search space used: 4004051425
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: 54 (25.4 bits)