RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6304
(407 letters)
>3tvs_A Cryptochrome-1; circadian clock light entrainment, jetlag,
phosphorylation, gene regulation, signaling protein;
HET: TPO FAD; 2.30A {Drosophila melanogaster}
Length = 538
Score = 314 bits (808), Expect = e-103
Identities = 170/490 (34%), Positives = 225/490 (45%), Gaps = 121/490 (24%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHG---GQLFIVQGSPISIFQKLKRELNFTKLC 58
GT ++GYNR RFLL+ L D+D QL++ G+L + +G P IF++L ++ ++C
Sbjct: 45 SAGTKNVGYNRMRFLLDSLQDIDDQLQAATDGRGRLLVFEGEPAYIFRRLHEQVRLHRIC 104
Query: 59 FEQDCE-----------------GVK-----------PYQSFPTGS-HPPR-YQPCKTLL 88
EQDCE + P T PP YQ
Sbjct: 105 IEQDCEPIWNERDESIRSLCRELNIDFVEKVSHTLWDPQLVIETNGGIPPLTYQM----- 159
Query: 89 NFR---DLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDP 145
F + GLPPRP D TF + R + LF+ +P PE F+ Y +
Sbjct: 160 -FLHTVQIIGLPPRPTADARLEDATFVELDPEFCRSLKLFEQLPTPEHFNVYGDNMGFLA 218
Query: 146 LIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRR 205
I W GGET+AL+ L+ERL E +F+ G YL NQ P++ P S SA L+FGCLSVRR
Sbjct: 219 KINWRGGETQALLLLDERLKVEQHAFERGFYLPNQALPNIHDSPKSMSAHLRFGCLSVRR 278
Query: 206 FYWALHDHFNTIHE--------GRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPIC 257
FYW++HD F + +H TGQLIWREYFYTMS +NP YD+ME N IC
Sbjct: 279 FYWSVHDLFKNVQLRACVRGVQMTGGAHI--TGQLIWREYFYTMSVNNPNYDRMEGNDIC 336
Query: 258 LNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLRR--------------------- 296
L+IPW E L +W+ GQTG+P ID MRQL
Sbjct: 337 LSIPW----AKPNENLLQSWRLGQTGFPLIDGAMRQLLAEGWLHHTLRNTVATFLTRGGL 392
Query: 297 --------------LLD--------------CT---------YCVCPVNFGRRLDPDGIY 319
LLD + CPV +RLDPDG Y
Sbjct: 393 WQSWEHGLQHFLKYLLDADWSVCAGNWMWVSSSAFERLLDSSLVTCPVALAKRLDPDGTY 452
Query: 320 IKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLEN-------K 372
IK+YVPEL P ++++EPW+ QE+ C+I YPERI++ A N +
Sbjct: 453 IKQYVPELMNVPKEFVHEPWRMSAEQQEQYECLIGVHYPERIIDLSMAVKRNMLAMKSLR 512
Query: 373 QYLKKEKANC 382
L +C
Sbjct: 513 NSLITPPPHC 522
>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET:
TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A*
2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A*
Length = 543
Score = 308 bits (791), Expect = e-100
Identities = 136/470 (28%), Positives = 194/470 (41%), Gaps = 111/470 (23%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61
M +G NR+RFL + L DLD QL+ +LF+V+G P +F ++ + L FE
Sbjct: 73 ILDWMQVGANRWRFLQQTLEDLDNQLRKLNSRLFVVRGKPAEVFPRIFKSWRVEMLTFET 132
Query: 62 DCE-----------------GVKPYQSFP-------------TGSHPPR-YQPCKTLLNF 90
D E GV+ ++ P YQ F
Sbjct: 133 DIEPYSVTRDAAVQKLAKAEGVR-VETHCSHTIYNPELVIAKNLGKAPITYQK------F 185
Query: 91 RD--LSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIR 148
P+ + + ++++ S P +Q K PE +
Sbjct: 186 LGIVEQLKVPKVLGVPEKLKNMPTPPKDEVEQKDSAAYDCPTMKQLVKRPEELGPNK--- 242
Query: 149 WLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFY 207
+ GGETEAL ++ E L EI + + +P+ P T+ S LKFGCLS R F
Sbjct: 243 FPGGETEALRRMEESLKDEIWVAR---FEKPNTAPNSLEPSTTVLSPYLKFGCLSARLFN 299
Query: 208 WALHDHFNTIHEG-RPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPES 266
L + + +PP GQL+WRE++YT++A P +D+M N C+ IPW
Sbjct: 300 QKLKEIIKRQPKHSQPPVSL--IGQLMWREFYYTVAAAEPNFDRMLGNVYCMQIPW---- 353
Query: 267 HPNKEKYLNAWKNGQTGYPFIDAVMRQLRR------------------------------ 296
+L AW +G+TGYPFIDA+MRQLR+
Sbjct: 354 -QEHPDHLEAWTHGRTGYPFIDAIMRQLRQEGWIHHLARHAVACFLTRGDLWISWEEGQR 412
Query: 297 -----LLD--------------CT-----Y--CVCPVNFGRRLDPDGIYIKRYVPELRQF 330
LLD + Y PV FG++ DP G YI++YVPEL ++
Sbjct: 413 VFEQLLLDQDWALNAGNWMWLSASAFFHQYFRVYSPVAFGKKTDPQGHYIRKYVPELSKY 472
Query: 331 PIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEKA 380
P IYEPWKA L Q C++ DYP RIV H EN + +
Sbjct: 473 PAGCIYEPWKASLVDQRAYGCVLGTDYPHRIVKHEVVHKENIKRMGAAYK 522
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A
{Arabidopsis thaliana}
Length = 537
Score = 294 bits (756), Expect = 2e-95
Identities = 144/470 (30%), Positives = 207/470 (44%), Gaps = 116/470 (24%)
Query: 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQD 62
PG+ G NR RFLLE L DLD LK G +L + +G P + + +E +LCFE D
Sbjct: 53 PGSSRAGVNRIRFLLESLKDLDSSLKKLGSRLLVFKGEPGEVLVRCLQEWKVKRLCFEYD 112
Query: 63 CE-----------------GVKPYQSFP-------------TGSHPPR-YQPCKTLLNFR 91
+ GV+ S G PP YQ F
Sbjct: 113 TDPYYQALDVKVKDYASSTGVE-VFSPVSHTLFNPAHIIEKNGGKPPLSYQS------FL 165
Query: 92 DLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLG 151
++G P K ++ + + + + +S VP E+ + + G
Sbjct: 166 KVAGEPSCAKSELVMSYSSLPPIGDIGNLGIS---EVPSLEELGYKDD--EQADWTPFRG 220
Query: 152 GETEALIKLNERLSQEIESFKSGV--YLSNQVSPDLTGPP-TSQ-SAALKFGCLSVRRFY 207
GE+EAL +L + +S K+ V + + P P T+ S LKFGCLS R FY
Sbjct: 221 GESEALKRLTKSISD-----KAWVANFEKPKGDPSAFLKPATTVMSPYLKFGCLSSRYFY 275
Query: 208 WALHDHFNTIHEG-RPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPES 266
L + + + + PP GQL+WRE+FYT + P +D+M+ N IC IPW
Sbjct: 276 QCLQNIYKDVKKHTSPPVSL--LGQLLWREFFYTTAFGTPNFDKMKGNRICKQIPW---- 329
Query: 267 HPNKEKYLNAWKNGQTGYPFIDAVMRQLRR------------------------------ 296
L AW++G+TGYP+IDA+M QL +
Sbjct: 330 -NEDHAMLAAWRDGKTGYPWIDAIMVQLLKWGWMHHLARHCVACFLTRGDLFIHWEQGRD 388
Query: 297 -----LLD--------------CT-----Y--CVCPVNFGRRLDPDGIYIKRYVPELRQF 330
L+D C+ + P++FG++ DPDG YI+ ++P L+
Sbjct: 389 VFERLLIDSDWAINNGNWMWLSCSSFFYQFNRIYSPISFGKKYDPDGKYIRHFLPVLKDM 448
Query: 331 PIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEKA 380
P QYIYEPW APL VQ KANCI+ KDYP+ +V H AS E K+ + + A
Sbjct: 449 PKQYIYEPWTAPLSVQTKANCIVGKDYPKPMVLHDSASKECKRKMGEAYA 498
>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A
{Synechocystis SP} SCOP: a.99.1.1 c.28.1.1
Length = 489
Score = 203 bits (518), Expect = 1e-60
Identities = 75/464 (16%), Positives = 141/464 (30%), Gaps = 137/464 (29%)
Query: 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQD 62
G G R FL + + +L L+ G +L + G P + ++ +++N + + ++
Sbjct: 50 QGFAKTGPWRSNFLQQSVQNLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHRE 109
Query: 63 CEG--------VK--------PYQSF-----------PTGS-HPPR-YQPCKTLLNFR-- 91
+ + + P P + FR
Sbjct: 110 VTQEELDVERNLVKQLTILGIEAKGYWGSTLCHPEDLPFSIQDLPDLFTK------FRKD 163
Query: 92 -DLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIR-W 149
+ + RP + + + L +P+++F + +
Sbjct: 164 IEKKKISIRPCFFAPSQLLPSPNIKLEL-----------TAPPPEFFPQINFDHRSVLAF 212
Query: 150 LGGETEALIKLNERLSQE--IESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRF 206
GGET L +L + ++ +K N + +S+ S L GCLS R
Sbjct: 213 QGGETAGLARLQDYFWHGDRLKDYKET---RNGM-VGADY--SSKFSPWLALGCLSPRFI 266
Query: 207 YWALHDHFNTIHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPES 266
Y + + +L+WR++F ++ + N PW
Sbjct: 267 YQEVKRYEQERVSNDSTHWL--IFELLWRDFFRFVAQKYGNKLFNRGGLLNKNFPW---- 320
Query: 267 HPNKEKYLNAWKNG---------------QTGYPFIDAVM----RQL------------- 294
+ W++G TG+ M RQ
Sbjct: 321 -QEDQVRFELWRSGQTGYPLVDANMRELNLTGF------MSNRGRQNVASFLCKNLGIDW 373
Query: 295 --------RRLLDCTYCVC-----------------------PVNFGRRLDPDGIYIKRY 323
L+D Y VC ++ DP G Y++ +
Sbjct: 374 RWGAEWFESCLID--YDVCSNWGNWNYTAGIGNDARDFRYFNIPKQSQQYDPQGTYLRHW 431
Query: 324 VPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
+PEL+ P I++PW Q++ + DYP VN Q+
Sbjct: 432 LPELKNLPGDKIHQPWLLSATEQKQWGVQLGVDYPRPCVNFHQS 475
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein,
flavoprotein, FAD, mitochondrion, plastid, chromophore,
chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana}
PDB: 2vtb_A* 2ijg_X* 2vtb_B*
Length = 525
Score = 183 bits (468), Expect = 4e-53
Identities = 73/462 (15%), Positives = 134/462 (29%), Gaps = 144/462 (31%)
Query: 2 FPGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61
F G R FL+ECL DL + L G L I G P I L ++ + +
Sbjct: 84 FFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTVFAHK 143
Query: 62 DCEGVKPY---------QSFPTGSHPPRYQPCK--TLLNFRDL---SGLPPRPKEDIDFR 107
+ Q + + + T+ + DL P
Sbjct: 144 ETC---SEEVDVERLVNQGLKRVGNSTKLELIWGSTMYHKDDLPFDVFDLPD-------- 192
Query: 108 HVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPL----------------IRWLG 151
+ +S++ + S+ + P P +D + +R++G
Sbjct: 193 --VYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVG 250
Query: 152 GETEALIKLNERLSQE--IESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFYW 208
GE+ + ++ E ++ ++ +K +++ S L FGC+S R Y
Sbjct: 251 GESAGVGRVFEYFWKKDLLKVYKET----RNGMLGPDY--STKFSPWLAFGCISPRFIYE 304
Query: 209 ALHDHFNTIHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHP 268
+ + +LIWR+YF +S P + W
Sbjct: 305 EVQRYEKERVANNSTYWV--LFELIWRDYFRFLSIKCGNSLFHLGGPRNVQGKW-----S 357
Query: 269 NKEKYLNAWKNG---------------QTGYPFIDAVM----RQL--------------- 294
+K +W++ TG+ M RQ+
Sbjct: 358 QDQKLFESWRDAKTGYPLIDANMKELSTTGF------MSNRGRQIVCSFLVRDMGLDWRM 411
Query: 295 ------RRLLDCTYCVC-----------------------PVNFGRRLDPDGIYIKRYVP 325
LLD Y C + DP+G Y+ ++
Sbjct: 412 GAEWFETCLLD--YDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDPEGEYVAFWLQ 469
Query: 326 ELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
+LR+ P + + P + Y + +V
Sbjct: 470 QLRRLPKEKRHWPGRLM--------------YMDTVVPLKHG 497
>2j07_A Deoxyribodipyrimidine photo-lyase; flavoprotein,
nucleotide-binding, DNA repair; HET: FAD HDF; 1.95A
{Thermus thermophilus} SCOP: a.99.1.1 c.28.1.1 PDB:
1iqu_A* 1iqr_A* 2j08_A* 2j09_A*
Length = 420
Score = 124 bits (314), Expect = 5e-32
Identities = 63/307 (20%), Positives = 96/307 (31%), Gaps = 54/307 (17%)
Query: 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQD 62
P + R + LE + L ++ GG L++++G P + R L +
Sbjct: 37 PNNLKTTPRRRAWFLENVRALREAYRARGGALWVLEGLPWEKVPEAARRLKAKAVYALTS 96
Query: 63 CEGVKPYQSFPTGSHPPRYQPCKTLLNFRDLSGLPP---RPKEDIDFRHVTFGTM----- 114
PY R + L P P
Sbjct: 97 HT---PYGR-------YRDGRVREALPVPLHLLPAPHLLPPDL---------PRAYRVYT 137
Query: 115 -----SESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIE 169
+ + +PK + + P D G PL GE AL L L ++
Sbjct: 138 PFSRLYRGAAPPLPPPEALPKGPEEGEIPREDPGLPL--PEPGEEAALAGLRAFLEAKLP 195
Query: 170 SFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFYWALHDHFNTIHEGRPPSHFNI 228
Y + D G S+ S G LS R W G +
Sbjct: 196 R-----YAEERDRLDGEG--GSRLSPYFALGVLSPRLAAWEAERR-----GGEGARKW-- 241
Query: 229 TGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFID 288
+L+WR++ Y + H P+ + +P PW E AW G+TG P +D
Sbjct: 242 VAELLWRDFSYHLLYHFPWMAERPLDPRFQAFPW-----QEDEALFQAWYEGKTGVPLVD 296
Query: 289 AVMRQLR 295
A MR+L
Sbjct: 297 AAMRELH 303
Score = 45.5 bits (109), Expect = 2e-05
Identities = 11/58 (18%), Positives = 20/58 (34%), Gaps = 25/58 (43%)
Query: 310 GRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
G R DP+G ++KR+ PE + + +V+ +A
Sbjct: 374 GERHDPEGRWLKRWAPEYPSYA-------------------------PKDPVVDLEEA 406
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy
transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA
FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1
c.28.1.1
Length = 471
Score = 117 bits (295), Expect = 4e-29
Identities = 67/338 (19%), Positives = 105/338 (31%), Gaps = 97/338 (28%)
Query: 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQG----SPISIFQKLKRELNFTKLCF--- 59
++ + + L L L G L + + + I +++ E + T L +
Sbjct: 45 NMSPRQAELINAQLNGLQIALAEKGIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQ 104
Query: 60 ------------EQDCEGVKPYQSFP-----------TGSHPPRYQ---P----CKTLLN 89
E+ V + F TG+H Y+ P L
Sbjct: 105 YEVNERARDVEVERALRNV-VCEGFDDSVILPPGAVMTGNHEM-YKVFTPFKNAWLKRLR 162
Query: 90 FRDLSGLP---PRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPL 146
+ R I+ P P YP F
Sbjct: 163 EGMPECVAAPKVRSSGSIE-----------------------PSPSITLNYPRQSFDTAH 199
Query: 147 IRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRR 205
+ E A+ +L + Y + P + G TS+ SA+L G LS R+
Sbjct: 200 --FPVEEKAAIAQLRQFCQNGAGE-----YEQQRDFPAVEG--TSRLSASLATGGLSPRQ 250
Query: 206 FYWALHDHFNTIHEGRPPSHFNITGQLIWREYFYTM--------SAHNPYYDQMEKNPIC 257
L +G S + +LIWRE FY H P+ +
Sbjct: 251 CLHRLLAEQPQALDGGAGSVW--LNELIWRE-FYRHLITYHPSLCKHRPFIAWTD----- 302
Query: 258 LNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLR 295
+ W + +L AW+ G+TGYP +DA MRQL
Sbjct: 303 -RVQW-----QSNPAHLQAWQEGKTGYPIVDAAMRQLN 334
Score = 70.7 bits (174), Expect = 2e-13
Identities = 20/58 (34%), Positives = 34/58 (58%), Gaps = 6/58 (10%)
Query: 310 GRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
G + D +G +I++++PELR P + ++EPWK ++ DYP+ IV H +A
Sbjct: 405 GEKFDHEGEFIRQWLPELRDVPGKVVHEPWKWAQKAG------VTLDYPQPIVEHKEA 456
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin
enzyme, photoreactivating enzyme; HET: FAD; 1.80A
{Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB:
1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A*
Length = 484
Score = 117 bits (295), Expect = 4e-29
Identities = 69/325 (21%), Positives = 107/325 (32%), Gaps = 64/325 (19%)
Query: 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG- 65
+ R +L CL +L ++ + G +L ++QG P + +L ++L + + QD E
Sbjct: 46 DMAPARVAYLQGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIEPY 105
Query: 66 -------VK--------PYQSFP-----------TGSHPPRYQ---P----CKTLLNFRD 92
V +GS P Y P +
Sbjct: 106 GRDRDGQVAAALKTAGIRAVQLWDQLLHSPDQILSGSGNP-YSVYGPFWKNWQAQPKPTP 164
Query: 93 LSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLGG 152
++ + + L P +Q + F G
Sbjct: 165 VATPTELVDLSPEQLTAIAPLLLSEL----------PTLKQLGFDWDGGF-----PVEPG 209
Query: 153 ETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFYWALH 211
ET A+ +L E + I Y + P G TS S ALKFG + +R+ + A
Sbjct: 210 ETAAIARLQEFCDRAIAD-----YDPQRNFPAEAG--TSGLSPALKFGAIGIRQAWQAAS 262
Query: 212 DHFNT-IHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNK 270
+ S +L WRE++ H P + PW N+
Sbjct: 263 AAHALSRSDEARNSIRVWQQELAWREFYQHALYHFPSLADGPYRSLWQQFPW-----ENR 317
Query: 271 EKYLNAWKNGQTGYPFIDAVMRQLR 295
E AW QTGYP +DA MRQL
Sbjct: 318 EALFTAWTQAQTGYPIVDAAMRQLT 342
Score = 70.3 bits (173), Expect = 2e-13
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 310 GRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
++ D YIKR++PELR + + P+ + YP IVNH
Sbjct: 412 AKKFDATATYIKRWLPELRHVHPKDLISGEITPIE---------RRGYPAPIVNHNLR 460
>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein;
HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} SCOP:
a.99.1.1 c.28.1.1 PDB: 1u3c_A*
Length = 509
Score = 113 bits (284), Expect = 1e-27
Identities = 64/324 (19%), Positives = 105/324 (32%), Gaps = 76/324 (23%)
Query: 15 FLLECLADLDRQLKSHGGQLFIVQGS-PISIFQKLKRELNFTKLCFEQDCEG-------- 65
+L LA LD L+S G L + + ++ + + +++ F +
Sbjct: 62 WLKNSLAQLDSSLRSLGTCLITKRSTDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHR 121
Query: 66 VK--------PYQSFP-----------TGSHPPRYQ---P----CKTLLNFRDLSGLPPR 99
K +SF P + C ++ + LPP+
Sbjct: 122 AKDVLTAQGIAVRSFNADLLYEPWEVTDELGRP-FSMFAAFWERCLSMPYDPESPLLPPK 180
Query: 100 PKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIR-WLGGETEALI 158
D + + V P F E L R W G +
Sbjct: 181 KIISGD------------------VSKCVADPLVFEDDSEKGSNALLARAWSPGWSNGDK 222
Query: 159 KLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFYWALHDHFNT- 216
L ++ + Y N+ D TS S L FG +SVR+ + +
Sbjct: 223 ALTTFINGPLLE-----YSKNRRKADSAT--TSFLSPHLHFGEVSVRKVFHLVRIKQVAW 275
Query: 217 IHEGRPPSHFNIT---GQLIWREYFYTMSAHNPYYDQMEKN--PICLNIPWLPESHPNKE 271
+EG ++ + REY +S ++P E+ PW E
Sbjct: 276 ANEGNEAGEESVNLFLKSIGLREYSRYISFNHP--YSHERPLLGHLKFFPW-----AVDE 328
Query: 272 KYLNAWKNGQTGYPFIDAVMRQLR 295
Y AW+ G+TGYP +DA MR+L
Sbjct: 329 NYFKAWRQGRTGYPLVDAGMRELW 352
Score = 84.6 bits (210), Expect = 5e-18
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 310 GRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA-- 367
G + DP+G Y++R++PEL + P +I+ PW AP V + A + +YP IV +A
Sbjct: 423 GYKFDPNGEYVRRWLPELSRLPTDWIHHPWNAPESVLQAAGIELGSNYPLPIVGLDEAKA 482
Query: 368 -SLENKQYLKKEKA 380
E + + +A
Sbjct: 483 RLHEALSQMWQLEA 496
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD,
DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii}
Length = 440
Score = 111 bits (281), Expect = 2e-27
Identities = 56/308 (18%), Positives = 102/308 (33%), Gaps = 77/308 (25%)
Query: 11 NRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN--FTKLCFEQD------ 62
F++ L +LD +L+ G +L + G + + +++ + +
Sbjct: 49 FAVSFMINSLLELDDELRKKGSRLNVFFGEAEKVVSRFFNKVDAIYVNEDYTPFSISRDE 108
Query: 63 ------------CEGVKPYQSFPTGSHPPR-YQPCKTLLNF-RDLSGLPPRPKEDIDFRH 108
+ + Y P R + F ++S + R E
Sbjct: 109 KIRKVCEENGIEFKAYEDYLLTPKSLFHHRNFTS------FYNEVSKVKVREPE------ 156
Query: 109 VTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEI 168
+++ + + + + +++ + GG E L L+ +
Sbjct: 157 --------TMEGSFDVTDSSMNVDFLLTFKKIESPL----FRGGRREGLYLLHRNVDFRR 204
Query: 169 ESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRFYWALHDHFNTIHEGRPPSHFN 227
+ P + S LKFG +S+R Y+ + E
Sbjct: 205 RDY-----------PAENN--NYRLSPHLKFGTISMREAYYTQKGKEEFVRE-------- 243
Query: 228 ITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFI 287
L WR++F ++ +NP+ NI W N E Y AWK G+TGYP I
Sbjct: 244 ----LYWRDFFTLLAYYNPHVFGHCYRREYDNISW-----ENNESYFEAWKEGRTGYPII 294
Query: 288 DAVMRQLR 295
DA MR L
Sbjct: 295 DAGMRMLN 302
Score = 70.3 bits (173), Expect = 2e-13
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 11/58 (18%)
Query: 310 GRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQA 367
+ DP+ +IK +V EL+ P I+ +K YP IVN ++
Sbjct: 371 QEKFDPEAKFIKEWVEELKDVPPSIIHSIYKTK-----------VPGYPSPIVNWLER 417
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD;
1.50A {Methanosarcina mazei} PDB: 2xrz_A*
Length = 482
Score = 110 bits (278), Expect = 6e-27
Identities = 50/332 (15%), Positives = 93/332 (28%), Gaps = 59/332 (17%)
Query: 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT------- 55
+ G ++ F+L+ L +L+ L F ++G P + ++ N
Sbjct: 77 DEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKISRFVKDYNAGTLVTDFS 136
Query: 56 ----------KLCFEQDCEGV------------------KPYQSFPTGSHPPRYQPCKTL 87
K+ +F P+
Sbjct: 137 PLRIKNQWIEKVISGISIPFFEVDAHNVVPCWEASQKHEYAAHTF-R----PKLYALLP- 190
Query: 88 LNFRDLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLI 147
L P + M E+L +V + D
Sbjct: 191 ---EFLEEFPELEPNSVTPELSAGAGMVETLS-DVLETGVKALLPERALLKNKDPLFEPW 246
Query: 148 RWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAALKFGCLSVRRF 206
+ GE A + ++ ++S+ + N P S S L FG +S +R
Sbjct: 247 HFEPGEKAAKKVMESFIADRLDSYGAL---RND--PTKNM--LSNLSPYLHFGQISSQRV 299
Query: 207 YWALHDHFNTIHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPES 266
+ + + G + + LIW+E +NP YD E P
Sbjct: 300 VLEVEKAES--NPGSKKAFLD--EILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHR 355
Query: 267 HPNKE--KYLNAWKNGQTGYPFIDAVMRQLRR 296
+ + L ++ G+T P +A +L
Sbjct: 356 NDVRSHIYTLEEFEAGKTHDPLWNASQMELLS 387
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine
dimers, UV damaged DNA, DNA repai flavoprotein; HET:
FAD; 1.71A {Oryza sativa japonica group}
Length = 506
Score = 80.5 bits (199), Expect = 1e-16
Identities = 26/165 (15%), Positives = 49/165 (29%), Gaps = 14/165 (8%)
Query: 138 PEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQ-SAAL 196
E + + GE A+ L + + Y +++ P S S L
Sbjct: 231 SEAENVPEIDWCEPGEEAAIEALLGSKDGFLTK-RIKSYETDRNDPTKPRA-LSGLSPYL 288
Query: 197 KFGCLSVRRFYWALHDHFNTIHEGRPPSHFNITGQLI-WREYFYTMSAHNPYYDQMEKNP 255
FG +S +R + + F +L+ RE + P YD +
Sbjct: 289 HFGHISAQRCALEAKKCRHLSPKSV--DAF--LEELVVRRELADNFCYYQPQYDSLSGAW 344
Query: 256 ICLNIPWLPESHPNKEKY----LNAWKNGQTGYPFIDAVMRQLRR 296
H ++ +N +T P +A ++
Sbjct: 345 EWARKTL--MDHAADKREHIYTREQLENAKTHDPLWNASQLEMVH 387
Score = 39.3 bits (92), Expect = 0.002
Identities = 11/47 (23%), Positives = 15/47 (31%), Gaps = 1/47 (2%)
Query: 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN 53
+ FLL L L + F+ G P I L + L
Sbjct: 84 SARRRQLGFLLRGLRRLAADAAARHLPFFLFTGGPAEI-PALVQRLG 129
Score = 32.4 bits (74), Expect = 0.25
Identities = 8/64 (12%), Positives = 19/64 (29%), Gaps = 24/64 (37%)
Query: 306 PVNFGRRLDPDGI--YIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVN 363
R+ D D Y+KR + ++ +++ P +V
Sbjct: 463 YAGCKRKFDVDAYISYVKRLAGQSKK----------------------RNAEESPNPVVK 500
Query: 364 HVQA 367
++
Sbjct: 501 LSKS 504
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 58.7 bits (141), Expect = 2e-09
Identities = 70/496 (14%), Positives = 131/496 (26%), Gaps = 188/496 (37%)
Query: 1 MFPGTMH---IG-YNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTK 56
+ + N +LE L L Q+ + + ++ EL +
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR--R 236
Query: 57 LCFEQ----------DCEGVKPYQSFPTGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDF 106
L + + + K + +F CK LL R K+ DF
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLS--------CKILLTTRF--------KQVTDF 280
Query: 107 ------RHVTFGTMSESLQREVSLFQTVPKPEQFHKY---------PEMDFGDPLI---- 147
H++ S +L + KY E+ +P
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVK-------SLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 148 ---------RWLGGETEALIKLN-ERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALK 197
W + +N ++L+ IES L+ +
Sbjct: 334 AESIRDGLATW-----DNWKHVNCDKLTTIIESS-----LNVLEPAEY------------ 371
Query: 198 FGCLSVRRFYWALHDHFNTIHEGRPPSHFNITGQLI---WREYFYTMSAHNPYYDQMEKN 254
R+ + L ++ P +I L+ W + D M
Sbjct: 372 ------RKMFDRL-----SVF----PPSAHIPTILLSLIWFD--------VIKSDVMVVV 408
Query: 255 PICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQL--------RRLLDCTYCVCP 306
L E P + P I ++ R ++D Y
Sbjct: 409 NKLHKYS-LVEKQPKESTI---------SIPSIYLELKVKLENEYALHRSIVDH-Y---- 453
Query: 307 VNFGRRLDPDGI-------YIKRYVP----------ELRQFP------------IQYIYE 337
N + D D + Y ++ + F I++
Sbjct: 454 -NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 338 PWKAP------LGVQEKANCIISKDYP--ERIVNHVQASLENKQYLKKEKANCIINKDYP 389
W A L + I + P ER+VN ++ + +L K + N I +K
Sbjct: 513 AWNASGSILNTLQQLKFYKPYICDNDPKYERLVN----AILD--FLPKIEENLICSKY-- 564
Query: 390 ERIVNHVQASLENKQN 405
+ ++ +L +
Sbjct: 565 ---TDLLRIALMAEDE 577
Score = 36.0 bits (82), Expect = 0.022
Identities = 43/326 (13%), Positives = 89/326 (27%), Gaps = 89/326 (27%)
Query: 132 EQFHKYPEM--DFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPP 189
E ++Y ++ F D + ++++ + LS + +
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFD-------------CKDVQDMPKSI-LSKEEIDHIIMSK 58
Query: 190 TSQSAALK-FGCL------SVRRF--------Y-WALHDHFNTIHEGRPPSHFNITGQLI 233
+ S L+ F L V++F Y + L T E R PS ++
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF-LMSPIKT--EQRQPS-------MM 108
Query: 234 WREYFYTMSAHNPYYDQMEKNPICLNIP----------WLPESHPNKEKYLNAWKNGQTG 283
R Y + + Y+ + N+ L E P K + +G G
Sbjct: 109 TRMY---IEQRDRLYNDNQVFAK-YNVSRLQPYLKLRQALLELRPAKNVLI----DGVLG 160
Query: 284 Y---PFIDAVMRQLRRLLDCTYCVCPVNFGRRLDPDGIYIK------RYVPELRQFPIQY 334
V + + + +N P+ + + P
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 335 IYEPWKAPLGVQEKANCIISKDYPER--IVNHVQASLENKQYLK--------------KE 378
+ E + SK Y ++ +VQ N + K+
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ----NAKAWNAFNLSCKILLTTRFKQ 276
Query: 379 KANCIINKDYPERIVNHVQASLENKQ 404
+ + ++H +L +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDE 302
Score = 29.4 bits (65), Expect = 2.9
Identities = 52/377 (13%), Positives = 105/377 (27%), Gaps = 107/377 (28%)
Query: 69 YQSFPTGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTV 128
+ F TG H +Y+ L F ++ D + V S + E+
Sbjct: 6 HMDFETGEHQYQYK--DILSVFE------DAFVDNFDCKDVQDMPKSILSKEEIDHIIMS 57
Query: 129 PKPEQ--------FHKYPE---MDFGDPLIR----WLGGETEALIKLNERLSQEIESFKS 173
E F + ++R +L + + +++ +
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
Query: 174 GVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRF--YWALHDHFNTIHEGRPPSHFNITGQ 231
+Y NQV +V R Y L + E RP + I G
Sbjct: 118 RLYNDNQVFAK----------------YNVSRLQPYLKLRQA---LLELRPAKNVLIDG- 157
Query: 232 LIWREYFYTMS-------AHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGY 284
+ A + + + I WL + N
Sbjct: 158 ---------VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP------------- 195
Query: 285 PFIDAVMRQLRRL---LDCTYCVCP---VNFGRRLDPDGIYIKRYVPELRQFPIQYI--- 335
+ V+ L++L +D + N R+ ++R + + + + +
Sbjct: 196 ---ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLL 251
Query: 336 ----YEPWKAPLGVQEK----------ANCIISKDYPERIVNHVQASL---ENKQYLKKE 378
+ W A + K + + + ++H +L E K L K
Sbjct: 252 NVQNAKAWNA-FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK- 309
Query: 379 KANCIINKDYPERIVNH 395
+C +D P ++
Sbjct: 310 YLDCRP-QDLPREVLTT 325
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 52.4 bits (125), Expect = 2e-07
Identities = 67/399 (16%), Positives = 105/399 (26%), Gaps = 161/399 (40%)
Query: 31 GGQLFIVQGSPISIFQKLKREL---------NFTKLCFEQDCEGVKPYQS----FPTG-- 75
GGQ G+ F++L R+L + K E E ++ F G
Sbjct: 161 GGQ-----GNTDDYFEEL-RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN 214
Query: 76 ---------SHPPR---------------YQPCKTLLNF---RDLSGLPPRPKEDIDFRH 108
+ P + Q L ++ L G P + R
Sbjct: 215 ILEWLENPSNTPDKDYLLSIPISCPLIGVIQ----LAHYVVTAKLLGFTPG-----ELRS 265
Query: 109 VTFGT--------------MS---ESLQREVS-----LF-------QTVPK----PEQFH 135
G + ES V LF + P P
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Query: 136 KYPEMDFGDP----LIRWLGGET-EALI-KLNERLSQEIESFKSGVYLSNQVSPD---LT 186
E + G P I L E + + K N L V +S ++
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG-----KQVEISLVNGAKNLVVS 380
Query: 187 GPPTSQSAALKFGCLSVRR-FYWALHDHFNTIHEGRPPSHFNITGQLIWREYFYTMSA-- 243
GPP S L L++R+ + D R R F +++
Sbjct: 381 GPPQS----LYGLNLTLRKAKAPSGLDQSRIPFSERKLK-------FSNR--FLPVASPF 427
Query: 244 HNPYY----DQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAV-MRQL---- 294
H+ D + K+ + N+ + + + Y D +R L
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKD-------IQI-----PVYDTFDGSDLRVLSGSI 475
Query: 295 -RRLLDCTYCVCPVN--------------FGRRLDPDGI 318
R++DC PV FG P G
Sbjct: 476 SERIVDCI-IRLPVKWETTTQFKATHILDFG----PGGA 509
Score = 45.4 bits (107), Expect = 3e-05
Identities = 53/236 (22%), Positives = 80/236 (33%), Gaps = 71/236 (30%)
Query: 3 PGTMHIG---YNRFRFLLECLADLDRQLKSHGGQ--LFIVQGSPISI---F-----QKLK 49
G M G Y + + D K G L IV +P+++ F +++
Sbjct: 1629 QG-M--GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI- 1684
Query: 50 RELNFTKLCFEQDCEG-VKPYQSFP---------TGSHP------PRY-QPCKTLLN--- 89
RE N++ + FE +G +K + F T ++ QP TL+
Sbjct: 1685 RE-NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAA 1743
Query: 90 FRDL--SGLPPRPKEDIDFRHVTF---------------GTMS-ESL-----QREVSLFQ 126
F DL GL P TF MS ESL R +++
Sbjct: 1744 FEDLKSKGLIPADA--------TFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQV 1795
Query: 127 TVPKPEQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGV-Y-LSNQ 180
VP+ E M +P EAL + ER+ + V Y + NQ
Sbjct: 1796 AVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ 1851
Score = 41.6 bits (97), Expect = 4e-04
Identities = 50/311 (16%), Positives = 79/311 (25%), Gaps = 108/311 (34%)
Query: 93 LSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLGG 152
+ RP + H G++ E L VP F ++ + + L
Sbjct: 1 MDAYSTRP---LTLSH---GSL------EHVL--LVPTASFFI-ASQLQ--EQFNKILPE 43
Query: 153 ETEALIKLNERLSQEIE---SFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWA 209
TE +E + E F Y+S+ V P L L + F
Sbjct: 44 PTEGFAADDE-PTTPAELVGKFLG--YVSSLVEP---SKVGQFDQVLN---LCLTEF--- 91
Query: 210 LHDHF---NTIH------EGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNI 260
+ + N IH + T +LI + Y
Sbjct: 92 -ENCYLEGNDIHALAAKLLQENDTTLVKTKELI-KNYITARIMAKR-------------- 135
Query: 261 PWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLRRLLDCTYCVCPVNFGRRLDPDGIYI 320
P + A G + FG + G
Sbjct: 136 ---PFDKKSNSALFRAVGEGNAQ-----------------LVAI----FGGQ----GN-T 166
Query: 321 KRYVPELRQFPIQY-IYEPWKAPLGVQEKANCI---------ISKDYPERIVNHVQASLE 370
Y ELR Y Y L ++ A + K + + + ++ LE
Sbjct: 167 DDYFEELRDL---YQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGL--NILEWLE 220
Query: 371 N------KQYL 375
N K YL
Sbjct: 221 NPSNTPDKDYL 231
Score = 38.1 bits (88), Expect = 0.006
Identities = 40/205 (19%), Positives = 67/205 (32%), Gaps = 59/205 (28%)
Query: 3 PGTM-HI-GYNRFRFLLECLADLDRQLKSH---------GGQLFIVQGSPISI------F 45
P M I + + + + + L + G + +V G P S+
Sbjct: 335 PSPMLSISNLTQ-EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 46 QKLKRE--LNFTKLCFEQDCEGVKPYQSF-PTGS--HPPRYQPCKTLLNFRDLSGLPPRP 100
+K K L+ +++ F + +K F P S H P L+N +DL
Sbjct: 394 RKAKAPSGLDQSRIPFSE--RKLKFSNRFLPVASPFHSHLLVPASDLIN-KDL------V 444
Query: 101 KEDIDFRH------VTFGTMSESLQREVS------LFQTV-PKP---EQFHKYPE---MD 141
K ++ F V + T S R +S + + P E ++ +D
Sbjct: 445 KNNVSFNAKDIQIPV-YDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD 503
Query: 142 FGDPLIRWLGGETEALIKLNERLSQ 166
FG P G L L R
Sbjct: 504 FG-P------GGASGLGVLTHRNKD 521
>1ywf_A Phosphotyrosine protein phosphatase PTPB; four stranded parallel
beta sheet with flanking helices, structural genomics,
PSI; 1.71A {Mycobacterium tuberculosis} SCOP: c.45.1.5
PDB: 2oz5_A*
Length = 296
Score = 31.8 bits (71), Expect = 0.39
Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 1/37 (2%)
Query: 71 SFPTGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFR 107
P GSH + NFRD++ + FR
Sbjct: 14 LVPRGSHM-AVRELPGAWNFRDVADTATALRPGRLFR 49
>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding,
T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP:
b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*
Length = 573
Score = 31.9 bits (72), Expect = 0.47
Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 302 YCVCPVNFGRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCII--SKDYPE 359
+ P+ + D GIY E++ F + +P++ P EKA+ ++ SK
Sbjct: 501 HVATPLEHCEQSDKRGIYAAARRGEIKGFT--GVDDPYETP----EKADLVVDFSKQSVR 554
Query: 360 RIVNHVQASLENKQYLKKE 378
IV+ + LE++ +L+++
Sbjct: 555 SIVHEIILVLESQGFLERQ 573
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 0.87
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 15/45 (33%)
Query: 153 ETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALK 197
E +AL KL L K +Y + D + P + A ++
Sbjct: 18 EKQALKKLQASL-------K--LY-----ADD-SAPALAIKATME 47
Score = 29.1 bits (64), Expect = 1.6
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 11/35 (31%)
Query: 372 KQYLKKEKANCIINKDY-----PERIVNHVQASLE 401
KQ LKK +A+ K Y P + A++E
Sbjct: 19 KQALKKLQASL---KLYADDSAPALAIK---ATME 47
Score = 29.1 bits (64), Expect = 1.6
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 7/28 (25%)
Query: 320 IKRYVPELRQFPIQYIYEPWKAP-LGVQ 346
+K+ L+ +Y AP L ++
Sbjct: 22 LKKLQASLK------LYADDSAPALAIK 43
>2j0j_A Focal adhesion kinase 1; cell migration, FERM, transferase,
integrin signaling; HET: 4ST; 2.80A {Gallus gallus} PDB:
2j0k_A*
Length = 656
Score = 30.6 bits (69), Expect = 0.94
Identities = 21/94 (22%), Positives = 34/94 (36%), Gaps = 13/94 (13%)
Query: 118 LQREVSLFQTVPKPEQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYL 177
L ++ + K E H E + + IR+L + +++ + +
Sbjct: 68 LHLDMGVSNVREKFELAHPPEEWKY-ELRIRYL------PKGFLNQFTEDKPTL---NFF 117
Query: 178 SNQVSPDL---TGPPTSQSAALKFGCLSVRRFYW 208
QV D Q ALK GCL +RR Y
Sbjct: 118 YQQVKNDYMLEIADQVDQEIALKLGCLEIRRSYG 151
>3equ_A PBP-2, penicillin-binding protein 2; class B transpeptidase, cell
DIV cell inner membrane, cell membrane, cell shape; HET:
SEP; 2.40A {Neisseria gonorrhoeae} PDB: 3eqv_A*
Length = 542
Score = 29.1 bits (66), Expect = 3.4
Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 14/81 (17%)
Query: 131 PEQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPT 190
P+ + P + L + + L +L Q+ +SF +++ Q+ P +
Sbjct: 60 PKDMKEMPSAAQLERLSELVDVPVD---VLRNKLEQKGKSF---IWIKRQLDPKV----A 109
Query: 191 SQSAALKFGCLSV----RRFY 207
+ AL +R Y
Sbjct: 110 EEVKALGLENFVFEKELKRHY 130
>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP;
2.31A {Aquifex aeolicus}
Length = 546
Score = 28.8 bits (64), Expect = 4.1
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 8/77 (10%)
Query: 302 YCVCPVNFGRRLDPDGIYIKRYVPELRQFP-IQYIYE-PWKAPLGVQEKANCIISKDYPE 359
+ PV D G+Y K ++ F + YE P + V +K PE
Sbjct: 475 FVDAPVEVCEERDVKGLYKKAKEGLIKGFTGVDDPYEPPVAPEVRVD------TTKLTPE 528
Query: 360 RIVNHVQASLENKQYLK 376
+ L+ + ++K
Sbjct: 529 ESALKILEFLKKEGFIK 545
>1esw_A Amylomaltase; (beta,alpha)8-barrel, glucanotransferase,
alpha-amylase FAMI acarbose, transferase; HET: ACR;
1.90A {Thermus aquaticus} SCOP: c.1.8.1 PDB: 1cwy_A*
1fp8_A 1fp9_A 2owc_A* 2oww_A* 2owx_A* 2x1i_A*
Length = 500
Score = 28.0 bits (63), Expect = 7.0
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 19/56 (33%)
Query: 208 WALHDHFNTIHEGR-------PPSHFNITGQLIWREYFYTMSAHNPYYD--QMEKN 254
WA + F+ EGR PP +F+ TGQ W NP Y +E+
Sbjct: 226 WAHPEWFHLDEEGRPTVVAGVPPDYFSETGQR-W---------GNPLYRWDVLERE 271
>1tz7_A 4-alpha-glucanotransferase; (beta, alpha)8- barrel; 2.15A {Aquifex
aeolicus} SCOP: c.1.8.1
Length = 505
Score = 27.6 bits (62), Expect = 7.5
Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 19/56 (33%)
Query: 208 WALHDHFNTIHEGR-------PPSHFNITGQLIWREYFYTMSAHNPYYD--QMEKN 254
W + F + + PP F+ TGQL W NP Y+ + EK
Sbjct: 239 WTNPELFKLDGDLKPLFVAGVPPDFFSKTGQL-W---------GNPVYNWEEHEKE 284
>3osj_A Phycobilisome LCM core-membrane linker polypeptid; structural
genomics, PSI-biology; 2.30A {Synechocystis SP} PDB:
2l06_A
Length = 147
Score = 26.7 bits (59), Expect = 8.4
Identities = 8/66 (12%), Positives = 21/66 (31%), Gaps = 4/66 (6%)
Query: 145 PLIRWLGGETEALIKLNERLS-QEIESFKSGVY---LSNQVSPDLTGPPTSQSAALKFGC 200
P + + LS E + Y ++ + + + ++ G
Sbjct: 1 PQSYFNAAAKRQKYAMKPGLSALEKNAVIKAAYRQIFERDITKAYSQSISYLESQVRNGD 60
Query: 201 LSVRRF 206
+S++ F
Sbjct: 61 ISMKEF 66
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.139 0.444
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,557,975
Number of extensions: 396738
Number of successful extensions: 844
Number of sequences better than 10.0: 1
Number of HSP's gapped: 801
Number of HSP's successfully gapped: 64
Length of query: 407
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 311
Effective length of database: 4,021,377
Effective search space: 1250648247
Effective search space used: 1250648247
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.2 bits)