RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8864
(749 letters)
>2xap_A Ribonucleoside-diphosphate reductase 1 subunit alpha;
oxidoreductase, DNA replication, allosteric enzyme,
nucleotide-binding; HET: NIY; 2.10A {Escherichia coli}
PDB: 2xo5_A* 2x0x_A 2r1r_A 3r1r_A* 3uus_A* 1r1r_A
2xav_A* 7r1r_A 2xax_A* 6r1r_A 2xaw_A* 5r1r_A 2xo4_A*
2xak_A* 4r1r_A* 2xaz_A* 2xay_A* 1rlr_A 1qfn_B
Length = 761
Score = 936 bits (2422), Expect = 0.0
Identities = 188/728 (25%), Positives = 306/728 (42%), Gaps = 70/728 (9%)
Query: 2 EKDPVYSQVTARLLMYCIQKEVFGKEIKQIDIPIKYKEYFSKFINKGIDNKLLNPKLAEF 61
P Y + ARL ++ ++K+ +G Q + P Y ++ K + G + L E
Sbjct: 72 RDAPDYQYLAARLAIFHLRKKAYG----QFEPPALY-DHVVKMVEMGKYDNHLLEDYTEE 126
Query: 62 NLSLLSNALLPERDLQFNYLGLKILYDRYFLH--IEGIRIEMPQFFFMRIAMGLSLNE-- 117
+ + +RD+ F+Y +K L +Y + + G E QF ++ +A L N
Sbjct: 127 EFKQMDTFIDHDRDMTFSYAAVKQLEGKYLVQNRVTGEIYESAQFLYILVAACLFSNYPR 186
Query: 118 SNREKCAIKFYNLLSSFNFMCSTPTLFNSGTIRSQLSSCYLSTVPDDLYGIFESIKENAL 177
R + +FY+ +S+F TP + T Q SSC L D L I +
Sbjct: 187 ETRLQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSAIVK 246
Query: 178 LSKYAGGLGNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVNQGGKRKGAICAYL 237
G+G + ++R+LGSPI+G G IPF K + +QGG R GA +
Sbjct: 247 YVSQRAGIGINAGRIRALGSPIRGGEAFHTGCIPFYKHFQTAVKSCSQGGVRGGAATLFY 306
Query: 238 ETWHMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPDLHN 297
WH+++E + L+ N G + R M+ + + L R++K TLFSP DVP L++
Sbjct: 307 PMWHLEVESLLVLKNNRGVEGNRVRHMDYGVQINKLMYTRLLKGEDITLFSPSDVPGLYD 366
Query: 298 KFGKEFEESYILYENQTKLGKIKLFKKISALYLWRKILSMLFETGHPWITFKDACNIRSP 357
F + EE LY K I+ +++ A+ L+ ++ TG +I D CN SP
Sbjct: 367 AFFADQEEFERLYTKYEKDDSIR-KQRVKAVELFSLMMQERASTGRIYIQNVDHCNTHSP 425
Query: 358 -QQHVGIIHSSNLCTEITLNTS--------KNEIGVCNLGSINLTLHMKNGKLDPIKLKK 408
+ + SNLC EI L T EI +C L + NL + +L++
Sbjct: 426 FDPAIAPVRQSNLCLEIALPTKPLNDVNDENGEIALCTLSAFNLGAI-----NNLDELEE 480
Query: 409 TIRIAMRMLDNVIDINYYAVKKAKYSNLRHRPVGLGIMGFQDCLHIMKIPYSSKEAIKFA 468
+A+R LD ++D Y + AK + R +G+G++ F L YS A
Sbjct: 481 LAILAVRALDALLDYQDYPIPAAKRGAMGRRTLGIGVINFAYYLAKHGKRYSDGSANNLT 540
Query: 469 DQSMEMICYYAYYASTELAEEKGRYSSYDGSLWDQGILPQDSLKLLEKERGSKYLKVNMS 528
++ E I YY AS ELA+E+G ++ + + +GILP D+ K N
Sbjct: 541 HKTFEAIQYYLLKASNELAKEQGACPWFNETTYAKGILPIDTYKKDLDTI------ANEP 594
Query: 529 ESLNWKKLRNRIKKFGMRNSNCVAIAPTATISNIIGVSASIEPTYRNLHIKSNLSGEFTE 588
+W+ LR IK G+RNS A+ P+ T S I + IEP + IK++ G +
Sbjct: 595 LHYDWEALRESIKTHGLRNSTLSALMPSETSSQISNATNGIEPPRGYVSIKASKDGILRQ 654
Query: 589 INRYLVKELKKKGLWDESMIANLKYFDGNLSQISRIPDDLRKIYATAFEI-SPNWIIEAG 647
+ + L Y +E+ + ++
Sbjct: 655 VVPDY--------------------------------EHLHDAYELLWEMPGNDGYLQLV 682
Query: 648 SVRQKWIDQSQSLNIYISNK-------SGKKLDETYKLAWLRGLKTTYYLRSISANYAKK 700
+ QK+IDQS S N ++L + A+ G+KT Y + +
Sbjct: 683 GIMQKFIDQSISANTNYDPSRFPSGKVPMQQLLKDLLTAYKFGVKTLYXQNTRDGAEDAQ 742
Query: 701 SNFEMGID 708
+ I
Sbjct: 743 DDLVPSIQ 750
>3k8t_A Ribonucleoside-diphosphate reductase large chain; eukaryotic
ribonucleotide reductase, nucleotide analogs, all enzyme
ATP-binding; HET: DGT 2A5; 2.10A {Saccharomyces
cerevisiae} PDB: 1zyz_A 2cvs_A 2cvt_A* 2cvu_A* 2cvv_A*
1zzd_A* 2cvw_A* 2cvy_A* 2eud_A* 2zlf_A 2zlg_A* 2cvx_A*
3paw_A 3s87_A* 3s8b_A* 3s8c_A* 3s8a_A* 3tb9_A* 3tba_A*
Length = 888
Score = 925 bits (2393), Expect = 0.0
Identities = 268/709 (37%), Positives = 402/709 (56%), Gaps = 32/709 (4%)
Query: 2 EKDPVYSQVTARLLMYCIQKEVFGKEIKQIDIPIKYKEYFSKFINKGIDNKLLNPKLAEF 61
P Y+ + AR+ + + K+ + K ++ +Y + I + + N +
Sbjct: 69 TVHPDYATLAARIAISNLHKQTTKQFSKVVEDLYRYVNAATGKPAPMISDDVYNIVME-- 126
Query: 62 NLSLLSNALLPERDLQFNYLGLKILYDRYFLHIEGIRIEMPQFFFMRIAMGLSLNESNRE 121
N L++A++ +RD Q++Y G K L Y L I G E PQ MR+A+G+ +
Sbjct: 127 NKDKLNSAIVYDRDFQYSYFGFKTLERSYLLRINGQVAERPQHLIMRVALGIHGRDIEA- 185
Query: 122 KCAIKFYNLLSSFNFMCSTPTLFNSGTIRSQLSSCYLSTVPDD-LYGIFESIKENALLSK 180
A++ YNL+S F ++PTLFN+GT + Q+SSC+L + +D + GI++++KE AL+SK
Sbjct: 186 --ALETYNLMSLKYFTHASPTLFNAGTPKPQMSSCFLVAMKEDSIEGIYDTLKECALISK 243
Query: 181 YAGGLGNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVNQGG-KRKGAICAYLET 239
AGG+G +RS GS I GTNG S G+IP ++V N+ A V+QGG KR GA YLE
Sbjct: 244 TAGGIGLHIHNIRSTGSYIAGTNGTSNGLIPMIRVFNNTARYVDQGGNKRPGAFALYLEP 303
Query: 240 WHMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPDLHNKF 299
WH DI +FI++RKN G + R D+ A+W+PDLFMKRV + TWTLFSP P L + +
Sbjct: 304 WHADIFDFIDIRKNHGKEEIRARDLFPALWIPDLFMKRVEENGTWTLFSPTSAPGLSDCY 363
Query: 300 GKEFEESYILYENQTKLGKIKLFKKISALYLWRKILSMLFETGHPWITFKDACNIRSPQQ 359
G EFE Y YE + + K I A LW IL ETG P++ +KDACN +S Q+
Sbjct: 364 GDEFEALYTRYEKEGR------GKTIKAQKLWYSILEAQTETGTPFVVYKDACNRKSNQK 417
Query: 360 HVGIIHSSNLCTEITLNTSKNEIGVCNLGSINLTLHMKNGK------LDPIKLKKTIRIA 413
++G+I SSNLC EI ++ +E VCNL S+ L ++ + + KL + ++
Sbjct: 418 NLGVIKSSNLCCEIVEYSAPDETAVCNLASVALPAFIETSEDGKTSTYNFKKLHEIAKVV 477
Query: 414 MRMLDNVIDINYYAVKKAKYSNLRHRPVGLGIMGFQDCLHIMKIPYSSKEAIKFADQSME 473
R L+ VID NYY V++A+ SN+RHRP+ LG+ G D ++++P+ S+EA Q E
Sbjct: 478 TRNLNRVIDRNYYPVEEARKSNMRHRPIALGVQGLADTFMLLRLPFDSEEARLLNIQIFE 537
Query: 474 MICYYAYYASTELAEEKGRYSSYDGSLWDQGILPQDSLKLLEKERGSKYLKVNMSESLNW 533
I + + AS ELA++ G Y ++ GS QGIL D +W
Sbjct: 538 TIYHASMEASCELAQKDGPYETFQGSPASQGILQFD------------MWDQKPYGMWDW 585
Query: 534 KKLRNRIKKFGMRNSNCVAIAPTATISNIIGVSASIEPTYRNLHIKSNLSGEFTEINRYL 593
LR I K G+RNS +A PTA+ S I+G + EP N++ + LSGEF +N YL
Sbjct: 586 DTLRKDIMKHGVRNSLTMAPMPTASTSQILGYNECFEPVTSNMYSRRVLSGEFQVVNPYL 645
Query: 594 VKELKKKGLWDESMIANLKYFDGNLSQISRIPDDLRKIYATAFEISPNWIIEAGSVRQKW 653
+++L G+WDE M L +G++ + +P +L+ +Y T +EIS II + R +
Sbjct: 646 LRDLVDLGIWDEGMKQYLITQNGSIQGLPNVPQELKDLYKTVWEISQKTIINMAADRSVY 705
Query: 654 IDQSQSLNIYISNKSGKKLDETYKLAWLRGLKT-TYYLRSISANYAKKS 701
IDQS SLN+++ + KL + W +GLKT YYLR+ +A+ A +
Sbjct: 706 IDQSHSLNLFLRAPTMGKLTSMHFYGWKKGLKTGMYYLRTQAASAAIQF 754
>3hnc_A Ribonucleoside-diphosphate reductase large subuni; oxidoreductase,
ribonucleotide reductase, allosteric enzyme, binding,
DNA replication; HET: TTP; 2.41A {Homo sapiens} PDB:
3hnd_A* 3hne_A* 3hnf_A*
Length = 792
Score = 918 bits (2375), Expect = 0.0
Identities = 285/751 (37%), Positives = 434/751 (57%), Gaps = 33/751 (4%)
Query: 2 EKDPVYSQVTARLLMYCIQKEVFGKEIKQIDIPIKYKEYFSKFINKGIDNKLLNPKLAEF 61
K P Y+ + AR+ + + KE ++ Y + + + L+ LA
Sbjct: 69 TKHPDYAILAARIAVSNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLA-- 126
Query: 62 NLSLLSNALLPERDLQFNYLGLKILYDRYFLHIEGIRIEMPQFFFMRIAMGLSLNESNRE 121
N L++A++ +RD +NY G K L Y L I G E PQ MR+++G+ + +
Sbjct: 127 NKDRLNSAIIYDRDFSYNYFGFKTLERSYLLKINGKVAERPQHMLMRVSVGIHKEDIDA- 185
Query: 122 KCAIKFYNLLSSFNFMCSTPTLFNSGTIRSQLSSCYLSTVPDD-LYGIFESIKENALLSK 180
AI+ YNLLS F ++PTLFN+GT R QLSSC+L ++ DD + GI++++K+ AL+SK
Sbjct: 186 --AIETYNLLSERWFTHASPTLFNAGTNRPQLSSCFLLSMKDDSIEGIYDTLKQCALISK 243
Query: 181 YAGGLGNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVNQ-GGKRKGAICAYLET 239
AGG+G + +R+ GS I GTNG S G++P L+V N+ A V+Q G KR GA YLE
Sbjct: 244 SAGGIGVAVSCIRATGSYIAGTNGNSNGLVPMLRVYNNTARYVDQGGNKRPGAFAIYLEP 303
Query: 240 WHMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPDLHNKF 299
WH+DI EF++L+KNTG + +R D+ A+W+PDLFMKRV W+L P + P L +
Sbjct: 304 WHLDIFEFLDLKKNTGKEEQRARDLFFALWIPDLFMKRVETNQDWSLMCPNECPGLDEVW 363
Query: 300 GKEFEESYILYENQTKLGKIKLFKKISALYLWRKILSMLFETGHPWITFKDACNIRSPQQ 359
G+EFE+ Y YE + ++ K + A LW I+ ETG P++ +KD+CN +S QQ
Sbjct: 364 GEEFEKLYASYEK-----QGRVRKVVKAQQLWYAIIESQTETGTPYMLYKDSCNRKSNQQ 418
Query: 360 HVGIIHSSNLCTEITLNTSKNEIGVCNLGSINLTLHMKNG-KLDPIKLKKTIRIAMRMLD 418
++G I SNLCTEI TSK+E+ VCNL S+ L +++ + D KL + ++ +R L+
Sbjct: 419 NLGTIKCSNLCTEIVEYTSKDEVAVCNLASLALNMYVTSEHTYDFKKLAEVTKVVVRNLN 478
Query: 419 NVIDINYYAVKKAKYSNLRHRPVGLGIMGFQDCLHIMKIPYSSKEAIKFADQSMEMICYY 478
+IDINYY V +A SN RHRP+G+G+ G D +M+ P+ S EA Q E I Y
Sbjct: 479 KIIDINYYPVPEACLSNKRHRPIGIGVQGLADAFILMRYPFESAEAQLLNKQIFETIYYG 538
Query: 479 AYYASTELAEEKGRYSSYDGSLWDQGILPQDSLKLLEKERGSKYLKVNMSESLNWKKLRN 538
A AS +LA+E+G Y +Y+GS +GIL D V ++ +WK L+
Sbjct: 539 ALEASCDLAKEQGPYETYEGSPVSKGILQYD------------MWNVTPTDLWDWKVLKE 586
Query: 539 RIKKFGMRNSNCVAIAPTATISNIIGVSASIEPTYRNLHIKSNLSGEFTEINRYLVKELK 598
+I K+G+RNS +A PTA+ + I+G + SIEP N++ + LSGEF +N +L+K+L
Sbjct: 587 KIAKYGIRNSLLIAPMPTASTAQILGNNESIEPYTSNIYTRRVLSGEFQIVNPHLLKDLT 646
Query: 599 KKGLWDESMIANLKYFDGNLSQISRIPDDLRKIYATAFEISPNWIIEAGSVRQKWIDQSQ 658
++GLW E M + +G++ I IPDDL+++Y T +EIS +++ + R +IDQSQ
Sbjct: 647 ERGLWHEEMKNQIIACNGSIQSIPEIPDDLKQLYKTVWEISQKTVLKMAAERGAFIDQSQ 706
Query: 659 SLNIYISNKSGKKLDETYKLAWLRGLKT-TYYLRSISANYAKKSNFEMGIDSVNLDEISI 717
SLNI+I+ + KL + W +GLKT YYLR+ A + ++N +++
Sbjct: 707 SLNIHIAEPNYGKLTSMHFYGWKQGLKTGMYYLRTRPAANPIQF-------TLNKEKLKD 759
Query: 718 KGYNKNLQEIKNNKKCLINSEINDVNECESC 748
K +E K + + + +EC C
Sbjct: 760 KEKVSKEEEEKERNTAAMVCSLENRDECLMC 790
>2wgh_A Ribonucleoside-diphosphate reductase large subunit; DNA
replication, allosteric enzyme, nucleotide-binding,
cytoplasm, ATP-binding, polymorphism; HET: DTP; 2.30A
{Homo sapiens}
Length = 676
Score = 903 bits (2334), Expect = 0.0
Identities = 274/693 (39%), Positives = 413/693 (59%), Gaps = 26/693 (3%)
Query: 7 YSQVTARLLMYCIQKEVFGKEIKQIDIPIKYKEYFSKFINKGIDNKLLNPKLAEFNLSLL 66
+ + AR+ + + KE ++ Y + + + L+ LA N L
Sbjct: 1 MAILAARIAVSNLHKETKKVFSDVMEDLYNYINPHNGKHSPMVAKSTLDIVLA--NKDRL 58
Query: 67 SNALLPERDLQFNYLGLKILYDRYFLHIEGIRIEMPQFFFMRIAMGLSLNESNREKCAIK 126
++A++ +RD +NY G K L Y L I G E PQ MR+++G+ + + AI+
Sbjct: 59 NSAIIYDRDFSYNYFGFKTLERSYLLKINGKVAERPQHMLMRVSVGIHKEDIDA---AIE 115
Query: 127 FYNLLSSFNFMCSTPTLFNSGTIRSQLSSCYLSTVPDD-LYGIFESIKENALLSKYAGGL 185
YNLLS F ++PTLFN+GT R QLSSC+L ++ DD + GI++++K+ AL+SK AGG+
Sbjct: 116 TYNLLSERWFTHASPTLFNAGTNRPQLSSCFLLSMKDDSIEGIYDTLKQCALISKSAGGI 175
Query: 186 GNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVNQGG-KRKGAICAYLETWHMDI 244
G + +R+ GS I GTNG S G++P L+V N+ A V+QGG KR GA YLE WH+DI
Sbjct: 176 GVAVSCIRATGSYIAGTNGNSNGLVPMLRVYNNTARYVDQGGNKRPGAFAIYLEPWHLDI 235
Query: 245 EEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPDLHNKFGKEFE 304
EF++L+KNTG + +R D+ A+W+PDLFMKRV W+L P + P L +G+EFE
Sbjct: 236 FEFLDLKKNTGKEEQRARDLFFALWIPDLFMKRVETNQDWSLMCPNECPGLDEVWGEEFE 295
Query: 305 ESYILYENQTKLGKIKLFKKISALYLWRKILSMLFETGHPWITFKDACNIRSPQQHVGII 364
+ Y YE + ++ K + A LW I+ ETG P++ +KD+CN +S QQ++G I
Sbjct: 296 KLYASYEK-----QGRVRKVVKAQQLWYAIIESQTETGTPYMLYKDSCNRKSNQQNLGTI 350
Query: 365 HSSNLCTEITLNTSKNEIGVCNLGSINLTLHMKNGKLDPI-KLKKTIRIAMRMLDNVIDI 423
SNLCTEI TSK+E+ VCNL S+ L +++ + KL + ++ +R L+ +IDI
Sbjct: 351 KCSNLCTEIVEYTSKDEVAVCNLASLALNMYVTSEHTYDFKKLAEVTKVVVRNLNKIIDI 410
Query: 424 NYYAVKKAKYSNLRHRPVGLGIMGFQDCLHIMKIPYSSKEAIKFADQSMEMICYYAYYAS 483
NYY V +A SN RHRP+G+G+ G D +M+ P+ S EA Q E I Y A AS
Sbjct: 411 NYYPVPEACLSNKRHRPIGIGVQGLADAFILMRYPFESAEAQLLNKQIFETIYYGALEAS 470
Query: 484 TELAEEKGRYSSYDGSLWDQGILPQDSLKLLEKERGSKYLKVNMSESLNWKKLRNRIKKF 543
+LA+E+G Y +Y+GS +GIL D V ++ +WK L+ +I K+
Sbjct: 471 CDLAKEQGPYETYEGSPVSKGILQYD------------MWNVTPTDLWDWKVLKEKIAKY 518
Query: 544 GMRNSNCVAIAPTATISNIIGVSASIEPTYRNLHIKSNLSGEFTEINRYLVKELKKKGLW 603
G+RNS +A PTA+ + I+G + SIEP N++ + LSGEF +N +L+K+L ++GLW
Sbjct: 519 GIRNSLLIAPMPTASTAQILGNNESIEPYTSNIYTRRVLSGEFQIVNPHLLKDLTERGLW 578
Query: 604 DESMIANLKYFDGNLSQISRIPDDLRKIYATAFEISPNWIIEAGSVRQKWIDQSQSLNIY 663
E M + +G++ I IPDDL+++Y T +EIS +++ + R +IDQSQSLNI+
Sbjct: 579 HEEMKNQIIACNGSIQSIPEIPDDLKQLYKTVWEISQKTVLKMAAERGAFIDQSQSLNIH 638
Query: 664 ISNKSGKKLDETYKLAWLRGLKT-TYYLRSISA 695
I+ + KL + W +GLKT YYLR+ +
Sbjct: 639 IAEPNYGKLTSMHFYGWKQGLKTGMYYLRTRAH 671
>1peq_A Ribonucleoside-diphosphate reductase 2 alpha chain; stranded
alpha/beta barrel, protein-specificity-effector complex,
DTTP; HET: TTP; 2.80A {Salmonella typhimurium} SCOP:
a.98.1.1 c.7.1.2 PDB: 1peo_A* 1pem_A* 1peu_A* 2bq1_E*
Length = 714
Score = 867 bits (2243), Expect = 0.0
Identities = 167/735 (22%), Positives = 304/735 (41%), Gaps = 85/735 (11%)
Query: 1 MEKDPVYSQVTARLLMYCIQKEVFGKEIKQ---------IDIPIKYKEYFSKFINKGIDN 51
M++ Y + A L +Y + + +Q + + + +
Sbjct: 10 MQETMDYHALNAMLNLYDKAGHIQFDKDQQAIDAFFATHVRPHSVTFASQHERLGTLVRE 69
Query: 52 KLLNPKLAEF----NLSLLSNALLPERDLQFNYLGLKILYDRYFLHI--EGIRIEMPQFF 105
+ + + L +LG Y Y L +E +
Sbjct: 70 GYYDDAVLARYDRAFVLRLFEHAHASGFRFQTFLGAWKFYTSYTLKTFDGKRYLEHFEDR 129
Query: 106 FMRIAMGLSLNESNREKCAIKFYNLLSSFNFMCSTPTLFNSGT-IRSQLSSCYLSTVPDD 164
+A+ L+ + A + + + S F +TPT N G R +L SC+L + D+
Sbjct: 130 VTMVALTLAQGDETL---ATQLTDEMLSGRFQPATPTFLNCGKQQRGELVSCFLLRIEDN 186
Query: 165 LYGIFESIKENALLSKYAGGLGNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVN 224
+ I ++ LSK GG+ + +R G+PIK +S GVIP +K++ D N
Sbjct: 187 MESIGRAVNSALQLSKRGGGVAFLLSNLREAGAPIKRIENQSSGVIPVMKMLEDAFSYAN 246
Query: 225 QGGKRKGAICAYLETWHMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTW 284
Q G R+GA YL H DI F++ ++ D++ R +++ + +PD+ + + +
Sbjct: 247 QLGARQGAGAVYLHAHHPDILRFLDTKRENADEKIRIKTLSLGVVIPDITFRLAKENAQM 306
Query: 285 TLFSPYDVPDLHNKFGKEFEESYI--LYENQTKLGKIKLFKKISALYLWRKILSMLFETG 342
LFSPYD+ +GK F + I Y+ ++ I+A ++ + + FE+G
Sbjct: 307 ALFSPYDIQRR---YGKPFGDIAISERYDELIADPHVR-KTYINARDFFQTLAEIQFESG 362
Query: 343 HPWITFKDACNIRSPQQHVGIIHSSNLCTEITLNTS------------KNEIGVCNLGSI 390
+P+I F+D N +P G I+ SNLC+EI S CNLGS+
Sbjct: 363 YPYIMFEDTVNRANPIA--GRINMSNLCSEILQVNSASRYDDNLDYTHIGHDISCNLGSL 420
Query: 391 NLTLHMKNGKLDPIKLKKTIRIAMRMLDNVIDINYY-AVKKAKYSNLRHRPVGLGIMGFQ 449
N+ M + + +T+ A+R L V D+++ +V N +GLG M
Sbjct: 421 NIAHVMDSPDI-----GRTVETAIRGLTAVSDMSHIRSVPSIAAGNAASHAIGLGQMNLH 475
Query: 450 DCLHIMKIPYSSKEAIKFADQSMEMICYYAYYASTELAEEKGR-YSSYDGSLWDQGILPQ 508
L I Y S EA+ F + I ++A + S LA E+G+ ++ + S + G
Sbjct: 476 GYLAREGIAYGSPEALDFTNLYFYTITWHAVHTSMRLARERGKTFAGFAQSRYASGDYFT 535
Query: 509 DSLKLLEKERGSKYLK------VNMSESLNWKKLRNRIKKFGMRNSNCVAIAPTATISNI 562
L+ + + +K + + W KLR+ + ++G+ N N A+ PT +IS I
Sbjct: 536 QYLQDDWQPKTAKVRALFARSGITLPTREMWLKLRDDVMRYGIYNQNLQAVPPTGSISYI 595
Query: 563 IGVSASIEPTYRNLHI-KSNLSGEFTEINRYLVKELKKKGLWDESMIANLKYFDGNLSQI 621
++SI P + I K +G ++
Sbjct: 596 NHATSSIHPIVAKIEIRKEGKTGRVYYPAPFM---------------------------- 627
Query: 622 SRIPDDLRKIYATAFEISPNWIIEAGSVRQKWIDQSQSLNIYISNK-SGKKLDETYKLAW 680
++ +Y A++I P II+ + + +DQ SL ++ + + + +++ AW
Sbjct: 628 ---TNENLDMYQDAYDIGPEKIIDTYAEATRHVDQGLSLTLFFPDTATTRDINKAQIYAW 684
Query: 681 LRGLKTTYYLRSISA 695
+G+K+ YY+R
Sbjct: 685 RKGIKSLYYIRLRQL 699
>3o0q_A Ribonucleoside-diphosphate reductase; alpha/beta barrel,
adenosylcobalamin dependent, ribonucle reductase; HET:
TTP GDP ADN; 1.80A {Thermotoga maritima} PDB: 1xjf_A*
1xjg_A* 1xje_A* 1xjk_A* 1xjm_A* 1xjn_A* 3o0n_A* 3o0o_A*
1xjj_A*
Length = 644
Score = 804 bits (2078), Expect = 0.0
Identities = 177/687 (25%), Positives = 310/687 (45%), Gaps = 96/687 (13%)
Query: 66 LSNALLPERDLQFNYLGLKILYDRYFLH-IEGIRIEMP-QFFFMRIAMGLSLNE------ 117
LS+ + D++ + IL DRYF+ ++G +E + R+A ++ E
Sbjct: 3 LSDLISRWIDVEPSKNAQIILRDRYFMKDLDGNYLETKWEDVARRVARVVATAELLNPSY 62
Query: 118 ------SNREKCAIKFYNLLSSFNFMCSTPTLFNSGTIR--------------------- 150
++ F+ +L + F+ ++PTLFN+G
Sbjct: 63 KKNEKLDRIKEWEDIFFRVLKARLFIPNSPTLFNAGLGVKHDLLWKPIDQMTLEDYEEIY 122
Query: 151 ------SQLSSCYLSTVPDDLYGIFESIKENALLSKYAGGLGNDWTQVRSLGSPIKGTNG 204
LS+C++ V D + IFE++KE AL++K GG+G++++++R GS + GT+G
Sbjct: 123 RSRNHLHMLSACFVVPVGDSIEEIFEAVKEYALITKVGGGVGSNFSELRPKGSFVAGTHG 182
Query: 205 RSQGVIPFLKVVNDVAVAVNQGGKRKGAICAYLETWHMDIEEFIELRK-NTGDDRRRTHD 263
++ G + F+ V N V QG +R+GA+ L H DIEEFI+ +K NTG+ +
Sbjct: 183 KASGPVSFMHVFNSAISVVKQGSRRRGALMGILNINHPDIEEFIDAKKENTGEAVLNFFN 242
Query: 264 MNIAIWV-PDLFMKRVIKKSTWTLFSPYDVPDLHNKFGKEFEESYILYENQTKLGKIKLF 322
+++ + +K + L P + +
Sbjct: 243 LSVGFPMDKKEILKLYEEDGELELSHP----------------------------RSTIR 274
Query: 323 KKISALYLWRKILSMLFETGHPWITFKDACNIRSPQQHVGIIHSSNLCTEITLNTSKNEI 382
KK+ L+RKI + +++G P + F N P I+S+N C EI L+ +
Sbjct: 275 KKVKIRELFRKIATNAWKSGDPGLAFLGEMNKYYPLYPHRKINSTNPCGEIGLS----DY 330
Query: 383 GVCNLGSINLTLHMKNGKLDPIKLKKTIRIAMRMLDNVIDINYYAVKKAKYSNLRHRPVG 442
CNLGSI++ NG +D L++ ++IA+R LDNVID+N + + K + R +G
Sbjct: 331 EACNLGSIDVAKFYNNGFVDLEALQELVQIAVRFLDNVIDVNVFPIDKITKAVKESRRLG 390
Query: 443 LGIMGFQDCLHIMKIPYSSKEAIKFADQSMEMICYYAYYASTELAEEKGRYSSYDGSLWD 502
LGIMGF D L+ ++IPY+S+EA FA M I +A+ S EL +EKG + + S +
Sbjct: 391 LGIMGFADLLYKLEIPYNSQEARDFAANLMAFIALHAHRTSYELGKEKGNFPLLEISRYR 450
Query: 503 QGILPQDSLKLLEKERGSKYLKVNMSESLNWKKLRNRIKKFGMRNSNCVAIAPTATISNI 562
+ MS + + ++ K RN + IAPT +ISNI
Sbjct: 451 TEDNFVP-------------FAMGMSNYDDEIREVMKMTKEFRRNVALLTIAPTGSISNI 497
Query: 563 IGVSASIEPTYRNLHIKSNLSGEFTEINRYLVKELKKKGLWDESMIANLKYF--DGNLSQ 620
S+ +EP + + + + T+ V ++ ++ L E + K G+L
Sbjct: 498 ADTSSGLEPNFLLAYTRFVTKEDGTKEPLLYVNQVLREKLNPEILKRIEKELIEKGSLKD 557
Query: 621 ISRIPDDLRKIYATAFEISPNWIIEAGSVRQKWIDQSQSLNIYISNK-SGKKLDETYKLA 679
I +P+ ++K++ A +I P + Q+++D + S I + + + Y A
Sbjct: 558 IPDVPEKIKKVFVVALDIDPMDHLLMQDAFQRYVDNNISKTINMPQSATVDDVLNVYLEA 617
Query: 680 WLRGLKT-TYY----LRSISANYAKKS 701
++ T Y L++ A K+
Sbjct: 618 LRTNVRGITVYRDGSLQTQVLTKALKT 644
>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 = 58.9 bits (142), Expect = 5e-09
Identities = 109/679 (16%), Positives = 184/679 (27%), Gaps = 292/679 (43%)
Query: 10 VTARLLMYCIQ-KEVFGK-------EIKQIDIPIKYKEYFSKFI----------NKGIDN 51
V Q +E F K D P E KF+ G +
Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFD 81
Query: 52 KLLNPKLAEFNLSLLSN--------ALLPERD---------------------------- 75
++LN L EF L LL E D
Sbjct: 82 QVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKS 141
Query: 76 ----------------LQF-------NYLG-LKILYDRYFLHIEGIRIEMPQFFFMRIAM 111
F +Y L+ LY Y + + A
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG--------DLIKFSAE 193
Query: 112 GLSLNESNREKCAIKFYNLLSSFNFMC------STPTLFNSGTIRSQLSSCYLSTVPDDL 165
LS A K + N + +TP YL ++P
Sbjct: 194 TLS-ELIRTTLDAEKVFT--QGLNILEWLENPSNTP------------DKDYLLSIP--- 235
Query: 166 YGIFESIKENAL--LSKY---AGGLGNDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVA 220
I S + L+ Y A LG ++RS +KG G SQG++ A
Sbjct: 236 --I--SCPLIGVIQLAHYVVTAKLLGFTPGELRSY---LKGATGHSQGLV--------TA 280
Query: 221 VAVNQGGKRKGAICAYLETWHMDIEEFIELRKNTGDDRRRTHDMNIAIWV--------PD 272
VA+ + +W E F + + + ++ P+
Sbjct: 281 VAIAETD-----------SW----ESFFVSVRKA---------ITVLFFIGVRCYEAYPN 316
Query: 273 LFMKRVIKKSTWTLFSPYDVPD-LHNKFGKEFEESYILYENQTKLGKIKLFKKISALYLW 331
T P + D L N G S +L + + L + ++ +
Sbjct: 317 ------------TSLPPSILEDSLENNEG---VPSPML--SISNLTQEQVQDYV------ 353
Query: 332 RKILSMLFETGHPWITFKDACNIRSPQ-QHVGIIHSSNLCTEITL-NTSKNEIGVC---- 385
+ N P + V EI+L N +KN + V
Sbjct: 354 ------------------NKTNSHLPAGKQV----------EISLVNGAKNLV-VSGPPQ 384
Query: 386 NLGSINLTLHMKNGKLDPIKLKKTIRIAMRMLDNVIDINYYAVKKAKYSNLRHRPVGLGI 445
+L +NLTL K K A LD + +S R +
Sbjct: 385 SLYGLNLTLR---------KAK-----APSGLDQ---------SRIPFSE-R-KLK--FS 417
Query: 446 MGFQDCLHIMKIPYSS---KEAIKFADQSMEMICYYAYYASTELAEEKGRYSSYDGSLWD 502
F L + P+ S A ++ +++ + + ++ Y ++DGS D
Sbjct: 418 NRF---LPVA-SPFHSHLLVPASDLINK--DLVKNNVSFNAKDIQIPV--YDTFDGS--D 467
Query: 503 QGILPQDSLKLLEKERGSKYLKVNMSESLNWKKLRNRIKKFGMRNSNCVAIAPTATISNI 562
L++L + + + + W+ ++I
Sbjct: 468 --------LRVLSGSISERIVDCIIRLPVKWET------------------TTQFKATHI 501
Query: 563 I----GVSASIEP-TYRNL 576
+ G ++ + T+RN
Sbjct: 502 LDFGPGGASGLGVLTHRNK 520
Score = 53.9 bits (129), Expect = 2e-07
Identities = 100/610 (16%), Positives = 182/610 (29%), Gaps = 187/610 (30%)
Query: 133 SFNFMCSTPTLFNSGTIRSQLSSCYLSTVPDDLYGI-----FESIKENALLSKYAGGLGN 187
S + PT S I SQL + +P+ G + E L+ K+ LG
Sbjct: 15 SLEHVLLVPT--ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE--LVGKF---LG- 66
Query: 188 DWTQVRSLGSPIKGTNGRSQGVIP---------FLKVVNDV-AVAVNQGGKRKGAICAYL 237
V SL P G+ V+ +L+ ND+ A+A + +
Sbjct: 67 ---YVSSLVEP--SKVGQFDQVLNLCLTEFENCYLEG-NDIHALAAKLLQENDTTLVKTK 120
Query: 238 ETWHMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPDLHN 297
E I+ +I R + + LF R + + L +
Sbjct: 121 EL----IKNYITARIMAKRPFDKKSN-------SALF--RAVGEGNAQLVA--------- 158
Query: 298 KFG---------KEFEESYILYENQTKLGKIKLFKKISALYLWRKI-----LSMLFETG- 342
FG +E + Y Y + K SA L I +F G
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYH-----VLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 343 --HPWITFKDACNIRSPQQHVGIIHSSNLCT-EITLNTSKNEIGVCNLGSINLTLHMKNG 399
W+ +P + L + I+ IGV L +T K
Sbjct: 214 NILEWLENPS----NTPDK-------DYLLSIPISCPL----IGVIQLAHYVVTA--KLL 256
Query: 400 KLDPIKLKKTIR--------------IAM-----RMLDNVIDINYYAVKKAKYSNLR--- 437
P +L+ ++ IA +V A+ + +R
Sbjct: 257 GFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK----AITVLFFIGVRCYE 312
Query: 438 -HRPVGLGIMGFQDCL-HIMKIP--------YSSKEAIKFADQSMEMICYYAYYASTELA 487
+ L +D L + +P + ++ + ++ ++ L
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK-----------TNSHLP 361
Query: 488 EEKGRYSS-YDGSLWDQGIL--PQDSL----KLLEKERGSKYL---KVNMSESLNWKKLR 537
K S +G+ ++ P SL L K + L ++ SE
Sbjct: 362 AGKQVEISLVNGA--KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE-------- 411
Query: 538 NRIKKFGMR--------NSNCVAIAPTATISNIIGVSASIEPTYRNLHIK-------SNL 582
R KF R +S+ + A +++ + S + I S+L
Sbjct: 412 -RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD--IQIPVYDTFDGSDL 468
Query: 583 SGEFTEINRYLVKELKKKGL-WDESMIANLKY---FD-GNLSQISRIPDD------LRKI 631
I+ +V + + + W+ + + F G S + + +R I
Sbjct: 469 RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVI 528
Query: 632 YATAFEISPN 641
A +I+P+
Sbjct: 529 VAGTLDINPD 538
Score = 43.9 bits (103), Expect = 2e-04
Identities = 38/221 (17%), Positives = 63/221 (28%), Gaps = 85/221 (38%)
Query: 88 DRYFLHIEGIRI-----EMPQ---FFF-------MR---IAMGLSLNESNREKCAIKFYN 129
D +F G I P F +R AM + K F
Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 130 L---LSSFNFMCSTPTLFNSGTIRSQ----LSSCYLSTVPDDLYGIFESIKENALL---S 179
+ +S+ F L T +Q L FE +K L+ +
Sbjct: 1710 INEHSTSYTFRSEKGLLSA--TQFTQPALTLME----------KAAFEDLKSKGLIPADA 1757
Query: 180 KYAGGLGNDWTQVRSLG--------SPIKGTNGRSQGVIPF---LKVVN------DVAVA 222
+AG SLG + V+ ++VV VAV
Sbjct: 1758 TFAG---------HSLGEYAALASLA----------DVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 223 VNQGGKRKGAICAYLETWHM-------DIEEFIE-LRKNTG 255
++ G+ + A + + ++ +E + K TG
Sbjct: 1799 RDELGRSNYGMIA-INPGRVAASFSQEALQYVVERVGKRTG 1838
Score = 43.5 bits (102), Expect = 3e-04
Identities = 47/309 (15%), Positives = 89/309 (28%), Gaps = 95/309 (30%)
Query: 433 YSNLRHR---PVGLGIMGFQ--DCLHIMKIPYSSKEAIKFADQSMEMICYYAYYASTELA 487
+ +L H P + Q + +P ++ + + EL
Sbjct: 13 HGSLEHVLLVPTASFFIASQLQEQF-NKILPEPTEGFAADDEPT----------TPAELV 61
Query: 488 EEKGRYSSYDGSLWDQGILPQ--DSLKLLEKERGSKYLKVNMSESLNWKKLRNRIKKFGM 545
G++ Y SL + + Q L L E + YL+ N
Sbjct: 62 ---GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN------------------- 99
Query: 546 RNSNCVAIAPTATISNIIGVSASIEPTYRNLHIKSNLSGEFTEINRY----LVKELKKKG 601
+ + +A + + + Y I + ++ L + + +
Sbjct: 100 -DIHALAAKLLQENDTTLVKTKELIKNYITARIMAK-----RPFDKKSNSALFRAVGEG- 152
Query: 602 LWDESMIA-------NLKYFDGNLSQISRIPDDLRKIYATAFEISPNWIIEAGSVRQKWI 654
+ ++A YF+ +LR +Y T + + I + + I
Sbjct: 153 --NAQLVAIFGGQGNTDDYFE-----------ELRDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 655 DQSQSLNIYISNKSGKKLDETYKLAWLRGLKTT---YYLRS--IS---------ANY--- 697
+ + + L+ L WL T YL S IS A+Y
Sbjct: 200 RTTLDAEKVFT----QGLN---ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVT 252
Query: 698 AKKSNFEMG 706
AK F G
Sbjct: 253 AKLLGFTPG 261
Score = 32.7 bits (74), Expect = 0.65
Identities = 42/239 (17%), Positives = 64/239 (26%), Gaps = 83/239 (34%)
Query: 92 LHIEGIRIEMPQFFFMRIAMGLSLNES--NREKCAIKFYNLLSSFNFMCSTPTLFNSGTI 149
L I + E Q + N ++ I N + N + S P
Sbjct: 339 LSISNLTQEQVQ---DYVN---KTNSHLPAGKQVEISLVN--GAKNLVVSGP-------- 382
Query: 150 RSQLSSCYLSTVPDDLYGIFESIKENALLSKYAGGLGNDWTQVRSLGS--PIKGTNGRSQ 207
P LYG+ N L K G D Q R S +K +N
Sbjct: 383 ------------PQSLYGL------NLTLRKAKAPSGLD--QSRIPFSERKLKFSNR--- 419
Query: 208 GVIPFLKV--------VNDVAVAVNQGGKRKGAICAYLETWHMDIEEFIELRK-----NT 254
FL V + + +N+ + +++ +++
Sbjct: 420 ----FLPVASPFHSHLLVPASDLINKDLVKNN------VSFNAK-----DIQIPVYDTFD 464
Query: 255 GDDRRRTHDMNIAIWVPDLFMKRV------IKKSTWTL-FSPYDVPDL-----HNKFGK 301
G D R V + V K+T L F P L NK G
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGT 523
>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 = 57.9 bits (139), Expect = 1e-08
Identities = 92/614 (14%), Positives = 184/614 (29%), Gaps = 169/614 (27%)
Query: 241 HMDIEEFIELRKNTGDDRRRTHDMNIAIWVPDLFMKRVIKKSTWTLFSPYDVPD-LHNKF 299
HMD E TG+ + + D+ + F + F DV D +
Sbjct: 6 HMDFE--------TGEHQYQYKDI-----LSV-FEDAFVDN-----FDCKDVQDMPKSIL 46
Query: 300 GKEFEESYILYENQTKLGKIKLF----KKISALYLWRKILSMLFETGHPWIT--FKDACN 353
KE E +I+ G ++LF K + +K + + + ++ K
Sbjct: 47 SKE-EIDHIIMSKDAVSGTLRLFWTLLSKQEEMV--QKFVEEVLRINYKFLMSPIKTEQR 103
Query: 354 IRSPQQHVGIIHSSNLCTEITLNTSKN----------EIGVCNLGSI-NLTLH-MK-NGK 400
S + I L + + N + L N+ + + +GK
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 401 -------LDPIKLK---------------KTIRIAMRMLDNV---IDINYYAVKKAKYSN 435
K++ + + ML + ID N+ + SN
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH-SSN 222
Query: 436 LRHRPVG--------LGIMGFQDCLHIMKIPYSSKEAIKFADQSMEMICYYAYYASTELA 487
++ R L +++CL ++ ++K F ++ + L+
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 488 EEKGRYSSYDGSLWDQGILPQDSLKLLEKERGSKYLKVNMSE-------------SLNWK 534
+ S D + P + LL KYL + S+ +
Sbjct: 283 AATTTHISLDHHSM--TLTPDEVKSLL-----LKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 535 KLR---NRIKKFGMRNSNCVAIAPTATISNIIGVS-ASIEPT-----YRNL-------HI 578
+R + ++ NC ++ II S +EP + L HI
Sbjct: 336 SIRDGLATWDNW--KHVNC------DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 579 KSNL-----SGEFTEINRYLVKELKKKGLWDESMIANLKYFDGNLSQISRIPDDLRKIYA 633
+ L +V +L K L ++ S IS IP IY
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK---------QPKESTIS-IPS----IY- 432
Query: 634 TAFEISPNWIIEAGSVRQKWIDQSQSLNIYISNKSGKKLDETYKLAWLRGLKTTYYLRSI 693
E+ + ++ + +D + S+ + Y G ++L++I
Sbjct: 433 --LELKVK-LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY-FYSHIG----HHLKNI 484
Query: 694 SANYAKKSNFEM--------------------GIDSVNLDEISIKGYNKNLQEIKNNKKC 733
+ + + F M S+ +K Y + + +
Sbjct: 485 E-HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 734 LINSEINDVNECES 747
L+N+ ++ + + E
Sbjct: 544 LVNAILDFLPKIEE 557
Score = 51.0 bits (121), Expect = 1e-06
Identities = 72/499 (14%), Positives = 146/499 (29%), Gaps = 162/499 (32%)
Query: 24 FGK-----EIKQIDIPIKYKEYFSKF-INKGIDNKLLNPKLAEFNLSLLSNALLPERDLQ 77
GK ++ ++ K F F +N N E L +L LL +
Sbjct: 161 SGKTWVALDVCL-SYKVQCKMDFKIFWLNLKNCNS------PETVLEMLQK-LL--YQID 210
Query: 78 FNYLGLKILYDRYFLHIEGIRIEMPQFFFMRIAMGLSLNESNREKCAI-----KFYNLLS 132
N+ L I I+ E+ + + E C + + +
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSK----------PYENCLLVLLNVQNAKAWN 260
Query: 133 SFNFMCSTPTLFNSGTIRSQ-----LSSCYLSTVP-DDLYGIFESIKENALLSKYAGGLG 186
+FN C L T R + LS+ + + D + +LL KY
Sbjct: 261 AFNLSC--KILL---TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD--- 312
Query: 187 NDWTQVRSLGSPIKGTNGRSQGVIPFLKVVNDVAVAVNQGGKRKGAICAYLETW-HMDIE 245
+ + L + TN P ++ +A ++ G + W H++ +
Sbjct: 313 ---CRPQDLPREVLTTN-------PR--RLSIIAESIRDGLAT-------WDNWKHVNCD 353
Query: 246 EFIELRK------NTGDDRRRTHDMNI-------------AIW------VPDLFMKRVIK 280
+ + + + R+ +++ IW + + ++ K
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK 413
Query: 281 KS---------TWTLFSPY--------DVPDLHNK---------------FGKEFEESYI 308
S T ++ S Y + LH + + Y
Sbjct: 414 YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Query: 309 L----Y--ENQTKLGKIKLFKKISALYL---W--RKILSMLFETGHPWITFKDACN---- 353
+ +N ++ LF+ + +L + +KI W N
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMV---FLDFRFLEQKIRH----DSTAWNASGSILNTLQQ 526
Query: 354 IRSPQQHVGIIHSSNLCTEITLNTSKNEIGVCNLGSINLTLHMKNGKLDPIKLKKTIRIA 413
++ + + I N K E V + L L K +RIA
Sbjct: 527 LKFYKPY------------ICDNDPKYERLVNAILDF---LPKIEENLICSKYTDLLRIA 571
Query: 414 MRMLDN--VIDINYYAVKK 430
+ M ++ + + + V++
Sbjct: 572 L-MAEDEAIFEEAHKQVQR 589
Score = 37.9 bits (87), Expect = 0.013
Identities = 40/239 (16%), Positives = 83/239 (34%), Gaps = 56/239 (23%)
Query: 552 AIAPTATISNIIGVSASIEPTYRNLHI----KSNLSGEFTE----IN-RYLVKELKKKGL 602
+I I +II ++ T R + + +F E IN ++L+ +K +
Sbjct: 44 SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR 103
Query: 603 WDESMIANL------KYFDGNLS----QISRIPDDLRKIYATAFEISPN-WII---EAGS 648
SM+ + + ++ N +SR K+ E+ P ++ GS
Sbjct: 104 -QPSMMTRMYIEQRDRLYNDNQVFAKYNVSR-LQPYLKLRQALLELRPAKNVLIDGVLGS 161
Query: 649 ---------VRQKWIDQSQSLNIY-ISNKSGKKLDETYKLAWLRGLKTTYYLRSISANYA 698
+ I+ ++ K+ + L L+ Y I N+
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-----LEMLQKLLYQ--IDPNWT 214
Query: 699 KKSNFEMGIDSVNLDEISIKGYNKNLQEIKNNKKCLINSEI-NDVNECE-------SCQ 749
+S+ ++ L SI+ + L + K + CL+ + +V + SC+
Sbjct: 215 SRSD---HSSNIKLRIHSIQAELRRLLKSKPYENCLL---VLLNVQNAKAWNAFNLSCK 267
Score = 32.9 bits (74), Expect = 0.45
Identities = 26/190 (13%), Positives = 61/190 (32%), Gaps = 43/190 (22%)
Query: 21 KEVFGKEIKQIDIPIKYKEYFSKF-I---NKGIDNKLL-------NPKLAEFNLSLLSNA 69
+ + ++ P +Y++ F + + + I LL ++ L
Sbjct: 356 TTIIESSLNVLE-PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 70 LLPERDLQFNYLGLKILYDRYFLHIEGIR------IE-----------------MPQFFF 106
L E+ + + + + +Y + +E ++ + Q+F+
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFY 474
Query: 107 MRIAMGLSLNESNREKCAIKFYNLLSSFNFMCSTPTLFNSGTIRSQLSSCYLSTVPD-DL 165
I G L + F + F F+ + + T + S L+T+
Sbjct: 475 SHI--GHHLKNIEHPERMTLFRMVFLDFRFLEQ--KIRHDSTAWNASGS-ILNTLQQLKF 529
Query: 166 YGIFESIKEN 175
Y + I +N
Sbjct: 530 YKPY--ICDN 537
>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 = 39.9 bits (92), Expect = 7e-04
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 14/42 (33%)
Query: 529 ESLNWKKLRNRIKKFGMRNSNCVAIAPTATISNIIGVSASIE 570
++L KKL+ +K + +S AP + + A++E
Sbjct: 20 QAL--KKLQASLKLYA-DDS-----APA------LAIKATME 47
Score = 33.4 bits (75), Expect = 0.11
Identities = 6/22 (27%), Positives = 12/22 (54%), Gaps = 2/22 (9%)
Query: 276 KRVIKK--STWTLFSPYDVPDL 295
K+ +KK ++ L++ P L
Sbjct: 19 KQALKKLQASLKLYADDSAPAL 40
Score = 28.8 bits (63), Expect = 4.4
Identities = 11/54 (20%), Positives = 16/54 (29%), Gaps = 27/54 (50%)
Query: 656 QSQSLNIYISNKSGKKLDETYKLAWLRGLKTTYYLRSISANYAKKSNFEMGIDS 709
+ Q+L KKL + KL YA S + I +
Sbjct: 18 EKQAL---------KKLQASLKL------------------YADDSAPALAIKA 44
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 31.4 bits (71), Expect = 1.5
Identities = 27/166 (16%), Positives = 53/166 (31%), Gaps = 44/166 (26%)
Query: 527 MSESLNWKKLRNRIKKFGMRNSN---CVAIAPTATISNIIGVSASIEPTYRNLHIKSNLS 583
+ K+ +++K + S V+I + G SA + ++N+
Sbjct: 731 LQFVPELKEFTAKLRKELVETSEVRKAVSIETALEHKVVNGNSADAAYAQVEIQPRANIQ 790
Query: 584 GEFTEINRYLVKELKKKGLWDESMIANLKYFDGNLSQISRIPDDLRKIYATAF-EISPNW 642
+F E+ Y + + E ++ + + + T F E+ P
Sbjct: 791 LDFPELKPY-KQVKQIAPAELEGLLD---------------LERVIVV--TGFAEVGP-- 830
Query: 643 IIEAGSVRQKW---IDQSQSLNIYISNKSGKKLDETY-KLAWLRGL 684
GS R +W SL E ++AW+ G
Sbjct: 831 ---WGSARTRWEMEAFGEFSL-------------EGCVEMAWIMGF 860
>3ot2_A Uncharacterized protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; 1.96A {Anabaena variabilis}
Length = 187
Score = 29.8 bits (67), Expect = 2.3
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 622 SRIPDDLRKIYATAFEISPNWIIEAGSVRQKWIDQSQSLNIYISN 666
SRIP + A F I+P+W IE S Q ++++ + +
Sbjct: 88 SRIPREENGEIANIFLIAPDWTIEILSPDQSQTKVTKNILHCLKH 132
>3u7q_B Nitrogenase molybdenum-iron protein beta chain; multiple rossmann
fold domains, reductase, nitrogen fixing,
oxidoreductase; HET: HCA ICS 1CL CLF; 1.00A {Azotobacter
vinelandii} PDB: 1fp4_B* 1g21_B* 1g20_B* 1m1n_B* 1l5h_B*
1m1y_B* 1m34_B* 1n2c_B* 2afh_B* 2afi_B* 2afk_B* 2min_B*
3k1a_B* 3min_B*
Length = 523
Score = 29.7 bits (67), Expect = 4.5
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 6/51 (11%)
Query: 699 KKSNFEMGIDSVNLDEISIKGYNKNLQEIKNNKKCLINSEINDVNECESCQ 749
K+ FE +DE+ K QE+ ++ L VN ++CQ
Sbjct: 27 KRDGFEEKYPQDKIDEVFQWTTTKEYQELNFQREALT------VNPAKACQ 71
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 29.1 bits (66), Expect = 4.6
Identities = 14/77 (18%), Positives = 26/77 (33%), Gaps = 22/77 (28%)
Query: 235 AYLET---WHMDIEEFIELRKNTGDDRRRTHDMNIAI-------WVPDLFMKRVIKKSTW 284
LE + ++E +EL + A+ D+ I + +
Sbjct: 138 GVLEDRFTPEIGVDEAVELAVRA---------IYSAMKRDSASGDGIDVV---KITEDEF 185
Query: 285 TLFSPYDVPDLHNKFGK 301
+SP +V + KF K
Sbjct: 186 YQYSPEEVEQILAKFRK 202
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding
nucleotide binding M binding, nucleus; HET: DNA TTD DTP;
3.34A {Homo sapiens}
Length = 517
Score = 28.8 bits (64), Expect = 6.8
Identities = 15/77 (19%), Positives = 32/77 (41%), Gaps = 4/77 (5%)
Query: 566 SASIEPTYRNLHIKSNLSGEFTEINRYLVKELKKKGLWDESMIANLKYFDGNLSQISRIP 625
S S+E T+ ++ E+ L ++L+K+ L ++ LK + + +
Sbjct: 404 SMSVERTFSEINKAEEQYSLCQELCSELAQDLQKERLKGRTVTIKLKNVNFEVKTRASTV 463
Query: 626 D----DLRKIYATAFEI 638
+I+A A E+
Sbjct: 464 SSVVSTAEEIFAIAKEL 480
>2ex3_B Protein GP3, DNA terminal protein; DNA polymerase: protein primer
complex, transferase-replicat complex; HET: DNA; 3.00A
{Bacillus phage PHI29} SCOP: a.263.1.1
Length = 230
Score = 28.3 bits (62), Expect = 8.1
Identities = 25/87 (28%), Positives = 35/87 (40%), Gaps = 5/87 (5%)
Query: 93 HIEGI-RIEMPQFFFMRIAMGL-SLNESNREKCAIKFYN---LLSSFNFMCSTPTLFNSG 147
H+ GI R F +R L +L ES + ++Y + NF+ S FNS
Sbjct: 102 HVTGINRPHDFDFSKVRSYSRLRTLEESMEMRTDPQYYEKKMIQLQLNFIKSVEGSFNSF 161
Query: 148 TIRSQLSSCYLSTVPDDLYGIFESIKE 174
+L PDD Y +F I E
Sbjct: 162 DAADELIEELKKIPPDDFYELFLRISE 188
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 28.0 bits (63), Expect = 9.5
Identities = 2/37 (5%), Positives = 6/37 (16%), Gaps = 3/37 (8%)
Query: 269 WVPDLFMKRVIKKSTWTLFSPYDVPDLHNKFGKEFEE 305
V +L + + +
Sbjct: 175 VVMELL---EKEYRDDITLDEGLELAITALTKANEDI 208
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
0.319 0.136 0.402
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,465,508
Number of extensions: 704307
Number of successful extensions: 1427
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1350
Number of HSP's successfully gapped: 32
Length of query: 749
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 648
Effective length of database: 3,881,772
Effective search space: 2515388256
Effective search space used: 2515388256
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 (21.8 bits)
S2: 61 (27.4 bits)