RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 003915
(787 letters)
>2ztg_A Alanyl-tRNA synthetase; class-II aminoacyl-tRNA synthetase,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase; HET: A5A; 2.20A {Archaeoglobus fulgidus}
Length = 739
Score = 672 bits (1735), Expect = 0.0
Identities = 156/742 (21%), Positives = 268/742 (36%), Gaps = 139/742 (18%)
Query: 63 VRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFL-GTADPNTQLSKLTR 121
+R+ + FFE + H + PVV + A + ++P G A P
Sbjct: 65 MREYYLNFFERRGHGRIERYPVVARWRTDIYLTIASIADFQPFVTSGVAPP-----PANP 119
Query: 122 ACNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGD-----YFKNEAIEWAWELLT 176
+Q CIR +DLD VG+ H T FEM+ + +F Y+KNE + + ELL
Sbjct: 120 LTISQPCIRL----DDLDSVGRTGRHLTLFEMMAHHAFNYPGKEIYWKNETVAYCTELLN 175
Query: 177 KVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLPASRVLPFGCKDNFWEMGDTGPC 236
++ + + + K+ W G G
Sbjct: 176 ELG-VKKEDIVY-----------------------------------KEEPWAGG--GNA 197
Query: 237 GPCSEIHYDRTG---------NRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPA 287
GPC E + ++ N +
Sbjct: 198 GPCLEAIVGGLEVATLVFMNLEEHPEGDIEIKGARYRKMDNYIVDTGYGLERFVWASKGT 257
Query: 288 KHVDTGLGFERLTSILQ--NKMSNYDTDVFMPIFDAIQQATG------------------ 327
V + E + +I+ N N + + I + G
Sbjct: 258 PTVYDAIFPEVVDTIIDNSNVSFNREDERVRRIVAESSKLAGIMGELRGERLNQLRKSVA 317
Query: 328 ARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGREYVLRRILRRAVRYG 387
+ +ADH R + F + DG P N G Y+ R ++RR++R
Sbjct: 318 DTVGVSVEELEGIVVPLEKVYSLADHTRCILFMLGDGLVPSNAGAGYLARLMIRRSLRLA 377
Query: 388 SEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKK 447
E L+ LV + K++G F + ++EI+ E+ + T+ KG ++
Sbjct: 378 EE-LEL-GLDLYDLVEMHKKILGFEFDVPL---STVQEILELEKERYRTTVSKGTRLVER 432
Query: 448 AAQDVQGKVLSGQDAFILWDTYGFPLDLTQLMAEERGLLVDIE-GFNNAMDEARERSRSA 506
+ K L D L+D++G P++L +A E+G V++ + + ++
Sbjct: 433 LVER--KKKLEKDDLIELYDSHGIPVELAVGIAAEKGAEVEMPKDIYAELAKRHSKAEKV 490
Query: 507 QNKQAGGAIVMDADATAALHKRGVLATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGN 566
Q K + + AT + +++ D T EF V+
Sbjct: 491 QEK--KITLQNEYPAT---------------EKLYYDD--------PTLLEFEAEVIGVE 525
Query: 567 EVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEGAGRFSVG 626
++L S+FY E GGQ D G++ G F V +V G V+H+ + VG
Sbjct: 526 GDFVILNRSAFYPESGGQDNDVGYLIANGGKFEVVDVLEADGVVLHVVK----GAKPEVG 581
Query: 627 EEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFDFSHGKPVD 686
+V +D D R +H+ TH+L ++L++VLG+HV Q G+ K R D +H +
Sbjct: 582 TKVKGVIDSDVRWRHMRHHSATHVLLYSLQKVLGNHVWQAGARKEFSKARLDVTHFRRPS 641
Query: 687 PEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVF--GEVYPDPVRVVAIGRKV 744
E ++ IE + N +I A + + EA+ G ++ G +RVV +G
Sbjct: 642 EEEIKEIEMLANREILANKPIKWEWMDRIEAERKFGF-RLYQGGVPPGRKIRVVQVG--- 697
Query: 745 EDLLADPENKEWLSISAELCGG 766
+ CGG
Sbjct: 698 --------------DDVQACGG 705
>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix motif,
amino acid binding, ligase; 2.08A {Aquifex aeolicus}
SCOP: a.203.1.1 d.104.1.1 PDB: 1yfr_A* 1riq_A 1yft_A
1ygb_A 3htz_A
Length = 465
Score = 656 bits (1694), Expect = 0.0
Identities = 202/461 (43%), Positives = 285/461 (61%), Gaps = 34/461 (7%)
Query: 63 VRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRA 122
+R+ F FFE K H KS+P+VP NDPTLLF NAGM +K +FLG RA
Sbjct: 8 IRELFLSFFEKKGHTRVKSAPLVPENDPTLLFVNAGMVPFKNVFLGLEKRPY-----KRA 62
Query: 123 CNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLP 182
+ QKC+R GKHNDL+ VG + HHTFFEMLGN+SFGDYFK EAIE+AWE +T+V +LP
Sbjct: 63 TSCQKCLRVSGKHNDLEQVGYTSRHHTFFEMLGNFSFGDYFKKEAIEYAWEFVTEVLKLP 122
Query: 183 ADRLYATYFGGDEKAGLAPDNEARDIWLKF--LPASRVLPFGCKDNFWEMGDTGPCGPCS 240
++LY + + DE EA IW + +P+ R+ G +DNFW+MGD GPCGP S
Sbjct: 123 KEKLYVSVYKDDE--------EAYRIWNEHIGIPSERIWRLGEEDNFWQMGDVGPCGPSS 174
Query: 241 EIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFERLT 300
EI+ DR + D +EIWN+VF+Q+NR+ +G L PLP ++DTG+G ER+
Sbjct: 175 EIYVDRGEEYE-------GDERYLEIWNLVFMQYNRDENGVLTPLPHPNIDTGMGLERIA 227
Query: 301 SILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFA 360
S+LQ K SN++ D+ P+ ++ +G + + + D+A RV+ADH+R ++FA
Sbjct: 228 SVLQGKNSNFEIDIIFPLIQFGEEVSGKKY-------GEKFETDVALRVIADHLRAITFA 280
Query: 361 IADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQRE 420
I+DG P NEGR YV+RRILRRA+R+G L ++ F V++VV +M + +PEL+
Sbjct: 281 ISDGVIPSNEGRGYVIRRILRRAMRFG-YKLGIENPFLYKGVDLVVDIMKEPYPELELSR 339
Query: 421 AHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQ---GKVLSGQDAFILWDTYGFPLDLTQ 477
++ I+ EE F KTL G+E ++ Q K LSG++ F +DTYGFP+DL
Sbjct: 340 EFVKGIVKGEEKRFIKTLKAGMEYIQEVIQKALEEGRKTLSGKEVFTAYDTYGFPVDLID 399
Query: 478 LMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIVMD 518
+A E+GL +D+EGF ++E RER+R K +
Sbjct: 400 EIAREKGLGIDLEGFQCELEEQRERARKHF-KVEAKKVKPV 439
>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, protein
biosynthesis, NUC binding, amino acid-binding,
ATP-binding, metal-binding; HET: G5A EPE; 1.90A
{Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
3hxw_A* 3hxx_A* 3hxy_A*
Length = 441
Score = 653 bits (1688), Expect = 0.0
Identities = 210/459 (45%), Positives = 282/459 (61%), Gaps = 38/459 (8%)
Query: 63 VRDTFFKFFEDKNHVNWKSSPVVPVNDPTLLFANAGMNQYKPIFLGTADPNTQLSKLTRA 122
+R F FF K H SS +VP NDPTLLF NAGMNQ+K +FLG N +RA
Sbjct: 7 IRQAFLDFFHSKGHQVVASSSLVPHNDPTLLFTNAGMNQFKDVFLGLDKRNY-----SRA 61
Query: 123 CNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTK--VYR 180
+Q+C+RAGGKHNDL++VG HHTFFEMLGN+SFGDYFK +AI +AW LLT +
Sbjct: 62 TTSQRCVRAGGKHNDLENVGYTARHHTFFEMLGNFSFGDYFKLDAILFAWLLLTSEKWFA 121
Query: 181 LPADRLYATYFGGDEKAGLAPDNEARDIWLKF--LPASRVLPFGCK-------DNFWEMG 231
LP +RL+ T + D+ EA +IW K +P R++ G DNFW+MG
Sbjct: 122 LPKERLWVTVYESDD--------EAYEIWEKEVGIPRERIIRIGDNKGAPYASDNFWQMG 173
Query: 232 DTGPCGPCSEIHYDRTGNRDAAS--LVNNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKH 289
DTGPCGPC+EI YD + D IEIWNIVF+QFNR++DG+++PLP
Sbjct: 174 DTGPCGPCTEIFYDHGDHIWGGPPGSPEEDGDRYIEIWNIVFMQFNRQADGTMEPLPKPS 233
Query: 290 VDTGLGFERLTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRV 349
VDT +G ER+ ++LQ+ SNYD D+F + A+ + TGA D + + RV
Sbjct: 234 VDTAMGLERIAAVLQHVNSNYDIDLFRTLIQAVAKVTGA-----------TDLSNKSLRV 282
Query: 350 VADHIRTLSFAIADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVM 409
+ADHIR+ +F IADG P NE R YVLRRI+RRAVR+G +L A++ FF LV ++ VM
Sbjct: 283 IADHIRSCAFLIADGVMPSNENRGYVLRRIIRRAVRHG-NMLGAKETFFYKLVGPLIDVM 341
Query: 410 GDVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTY 469
G +LK+++A + +++ EE F +TL +G+ + + G L G+ AF L+DTY
Sbjct: 342 GSAGEDLKRQQAQVEQVLKTEEEQFARTLERGLALLDEELAKLSGDTLDGETAFRLYDTY 401
Query: 470 GFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQN 508
GFP+DLT + ER + VD GF AM+E R R+R A
Sbjct: 402 GFPVDLTADVCRERNIKVDEAGFEAAMEEQRRRAREASG 440
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 463 bits (1192), Expect = e-153
Identities = 165/769 (21%), Positives = 289/769 (37%), Gaps = 168/769 (21%)
Query: 63 VRDTFFKFFEDKN---HVNWKSSPVVPVNDPTLLFANAGMNQYKP-IFLGTADPNTQLSK 118
+R+ F +FFE H PV+P +L A + ++P + G ADP
Sbjct: 62 MREXFLRFFEXHEIYPHGRVXRYPVLPRWRDDVLLVGASIMDFQPWVISGEADPPA---- 117
Query: 119 LTRACNTQKCIRAGGKHNDLDDVGKDTYHHTFFEMLGNWSFGD-----YFKNEAIEWAWE 173
+Q IR D+D+VG H T FEM+ + +F Y+ +E +E A+E
Sbjct: 118 -NPLVISQPSIR----FTDIDNVGITGRHFTIFEMMAHHAFNYPGXPIYWMDETVELAFE 172
Query: 174 LLTKVYRLPADRLYATYFGGDEKAGLAPDNEARDIWLKFLPASRVLPFGCKDNFWEMGDT 233
TK + + + K+N W G
Sbjct: 173 FFTKELXMXPEDITF-----------------------------------KENPWAGG-- 195
Query: 234 GPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRESDGS------------ 281
G GP E+ Y +E+ +VF+Q+ + +
Sbjct: 196 GNAGPAFEVLYR-----------------GLEVATLVFMQYXXAPENAPQDQVVVIXGEK 238
Query: 282 LKPLPAKHVDTGLGFERLTSILQNKMSNYDTDVFMPI----------------------- 318
P+ VDTG G ERL + Q + YD + +
Sbjct: 239 YIPMETXVVDTGYGLERLVWMSQGTPTAYDAVLGYVVEPLXXMAGIEKIDEKILMENSRL 298
Query: 319 -----------FDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCP 367
+++ R + A + +ADH + L+F +ADG P
Sbjct: 299 AGMFDIEDLGDLRYLREQVAKRVGITVEELEKAIRPYELIYAIADHTKALTFMLADGVVP 358
Query: 368 GNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPELKQREAHIREII 427
N Y+ R ++R+++R+ E+ + + +V + + + FPE + E I E+I
Sbjct: 359 SNVXAGYLARLLIRKSIRHLREL--GLEVPLSEIVALHIXELHKTFPEFXEMEDIILEMI 416
Query: 428 AAEEASFGKTLLKGIEKFKKAAQDVQ---GKVLSGQDAFILWDTYGFPLDLTQLMAEERG 484
EE + +TL +G + ++ ++ K + + ++++G ++ +AE+ G
Sbjct: 417 ELEEKXYAETLRRGSDLVRREIAKLKKKGIKEIPVEXLVTFYESHGLTPEIVXEIAEKEG 476
Query: 485 LLVDI-EGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDDSFKFIWFQ 543
+ V+I + F + + + ER++ + ++ ++ + ++++
Sbjct: 477 VKVNIPDNFYSMVAKEAERTKEEKGEELVDFELLKDLPDT--------------RRLYYE 522
Query: 544 DHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNV 603
D EF V+ ++L +++FY E GGQ +D G + V NV
Sbjct: 523 D--------PFMXEFDAXVLRVIXDWVILDATAFYPEGGGQPYDTGVLIVNGREVXVTNV 574
Query: 604 QIYGGFVIHIGSLTEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHV 663
Q G +IH E G F G V +D+ RR +HT TH+L AL VLG HV
Sbjct: 575 QXVGXVIIHXV---EDPGAFXEGMIVHGXIDWXRRIQHMRHHTGTHVLMGALVRVLGRHV 631
Query: 664 DQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGL 723
Q GS + + R D SH + E L IE + N + + V + A+ G
Sbjct: 632 WQAGSQLTTDWARLDISHYXRISEEELXEIEMLANRIVMEDRXVTWEWLPRTTAEQXYGF 691
Query: 724 RAVF--GEVYPDPVRVVAIGRKVEDLLADPENKEWLSISAELCGGQYVA 770
++ G V +RVV I + CGG ++
Sbjct: 692 -RLYQGGVVPGREIRVVXIE----------------DWDVQACGGTHLP 723
>2e1b_A PH0108, 216AA long hypothetical alanyl-tRNA synthetase;
zinc-binding motif, trans-editing enzyme, structural
genomics, NPPSFA; 2.70A {Pyrococcus horikoshii} SCOP:
b.43.3.6 d.67.1.2
Length = 216
Score = 187 bits (477), Expect = 6e-55
Identities = 50/211 (23%), Positives = 77/211 (36%), Gaps = 44/211 (20%)
Query: 557 EFIESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSL 616
E V+ + I+L + FY GGQ D G I G V +V +
Sbjct: 17 EAKGRVLEIRDNAILLDQTIFYPTGGGQPHDRGTING----VEVLDVYKDEEGNVWHV-- 70
Query: 617 TEGAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQ-KGSVVLPEKL 675
+ +F VG+EV K+D+D R + HT H+L L EVLG+ Q GS + EK
Sbjct: 71 VKEPEKFKVGDEVELKIDWDYRYKLMRIHTGLHLLEHVLNEVLGEGNWQLVGSGMSVEKG 130
Query: 676 RFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPV 735
R+D ++ + ++ +I S+ N+ + G ++ E
Sbjct: 131 RYDIAYPENLNKY-KEQIISLFNKYVDE-----------------GGEVKIWWE---GDR 169
Query: 736 RVVAIGRKVEDLLADPENKEWLSISAELCGG 766
R I CGG
Sbjct: 170 RYTQIR----------------DFEVIPCGG 184
>3kew_A DHHA1 domain protein; structural genomics, PSI-2, tRNA synthase,
protein structure initiative; 2.00A {Clostridium
perfringens}
Length = 241
Score = 184 bits (470), Expect = 1e-53
Identities = 43/208 (20%), Positives = 75/208 (36%), Gaps = 31/208 (14%)
Query: 559 IESVVPGNEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTE 618
IE + ++L ++F+ GGQ+ D G I+G V +V G V H+
Sbjct: 21 IEVKEIDGKFHVLLDQTAFFPGGGGQMGDLGLIDG----IKVLDVYEEEGKVYHVLE--- 73
Query: 619 GAGRFSVGEEVICKVDYDRRKLIAPNHTCTHMLNFALREVLGDHVDQKGSVVLPEKLRFD 678
+ + C++D++RR H H+L+ ++ G + G + E D
Sbjct: 74 --KEPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFYDLFGANT--CGFHLGKEISTVD 129
Query: 679 FSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDPVRVV 738
+D + +R E N I L+V S + E K + R + +R+V
Sbjct: 130 IVG--FLDEKTIREAEKEANRLIFENLEVKSYAPSKKELKKV-KTRRAL-PKTDEEIRIV 185
Query: 739 AIGRKVEDLLADPENKEWLSISAELCGG 766
I + C G
Sbjct: 186 EIV----------------GLDLNACCG 197
>1v4p_A Alanyl-tRNA synthetase; alanine-tRNA ligase, riken structural
genomics/proteomics initiative RSGI, structural
genomics; 1.45A {Pyrococcus horikoshii} SCOP: d.67.1.2
PDB: 1wxo_A 1v7o_A 1wnu_A 3rhu_A 3rfn_A
Length = 157
Score = 134 bits (339), Expect = 1e-36
Identities = 26/143 (18%), Positives = 46/143 (32%), Gaps = 32/143 (22%)
Query: 638 RKLIAPNHTCTHMLNFALREVLGDHVDQ-KGSVVLPEKLRFDFSHGKPVDPEHLRRIESI 696
+ H+ H++ A+ +VLG + V K + E +R IE +
Sbjct: 2 YSIEVRTHSALHVVKGAVVKVLGSEAKWTYSTYVKGNKGVLIVKFDRKPSDEEIREIERL 61
Query: 697 VNEQIKAELDVFSKEATLAEAKCINGLRAVFGEVYPDP---------VRVVAIGRKVEDL 747
NE++K + E EA+ +FGE D ++VV I
Sbjct: 62 ANEKVKENAPIKIYELPREEAE------KMFGEDMYDLFPVPEDVRILKVVVIE------ 109
Query: 748 LADPENKEWLSISAELCGGQYVA 770
+ C ++
Sbjct: 110 ----------DWNVNACNKEHTK 122
>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 = 50.4 bits (120), Expect = 2e-06
Identities = 49/288 (17%), Positives = 81/288 (28%), Gaps = 107/288 (37%)
Query: 364 GS-CPGNEGRE-Y----VLRRILRRAVRYGSEVLKAQDGFFNGLVNIVV---KVMGDVFP 414
GS G G + Y + + RA + + GF +++IV+ + F
Sbjct: 1625 GSQEQG-MGMDLYKTSKAAQDVWNRADNHFKDTY----GF--SILDIVINNPVNLTIHFG 1677
Query: 415 ELKQREAHIRE---IIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGF 471
K + IRE + E GK + I FK+ + +
Sbjct: 1678 GEKGKR--IRENYSAMIFETIVDGKLKTEKI--FKEINEHSTSYTFRSEKGL-------- 1725
Query: 472 PLDLTQ-----LMA---------EERGLLVDIEGFNNAMDEARERSRSAQNKQAG---G- 513
L TQ L + +GL+ F AG G
Sbjct: 1726 -LSATQFTQPALTLMEKAAFEDLKSKGLIPADATF------------------AGHSLGE 1766
Query: 514 -------AIVMD-ADATAALHKRGVLATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPG 565
A VM + RG ++ VP
Sbjct: 1767 YAALASLADVMSIESLVEVVFYRG---------------------------MTMQVAVPR 1799
Query: 566 NEVGIVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHI 613
+E+G ++ A G++ E L + V V G+++ I
Sbjct: 1800 DELGR--SNYGMIAINPGRVAASFSQEAL--QYVVERVGKRTGWLVEI 1843
Score = 50.0 bits (119), Expect = 3e-06
Identities = 87/597 (14%), Positives = 168/597 (28%), Gaps = 217/597 (36%)
Query: 167 AIEWAWELLTKVYRLPADRLYATYFGGDEKA---GLAPDNEAR---DIWLKFLP--ASRV 218
++E + T + A +L F G A D+E ++ KFL +S V
Sbjct: 15 SLEHVLLVPTASF-FIASQLQEQ-FNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLV 72
Query: 219 LPFGCKDNFWEMGDTGPCGPCSEI------HYDRT--GNRD----AASLVNNDDPTCIEI 266
P G ++ ++ D AA L+ +D T ++
Sbjct: 73 EP-------------SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 267 WNIV------FIQFNRESDGSLKPLPAKHVDTG-------LG--------FERLTSILQN 305
++ I R D + V G G FE L +
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL--- 176
Query: 306 KMSNYDT------DVFMPIFDAIQQATGARPYSGKV---GAD------DADKV-DMAYRV 349
Y T D+ + + + + KV G + + D Y +
Sbjct: 177 ----YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 350 VADHIRTLSF--------------AIADGSCPGNEGREYVLRRILRRAVRYGSEVLKAQ- 394
+S A G PG LR L+ A + ++ A
Sbjct: 233 SI----PISCPLIGVIQLAHYVVTAKLLGFTPGE------LRSYLKGATGHSQGLVTAVA 282
Query: 395 -------DGFFNGLVNIVVKVM---G----DVFPELKQREAHIREIIAAEE--ASF---- 434
+ FF + + V+ G + +P + + + + E S
Sbjct: 283 IAETDSWESFFVSVRK-AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 435 -G---KTLLKGIEKFKK---AAQDVQGKVLSGQDAFILWDTYGFPLDLTQLMAEERGLLV 487
+ + + K A + V+ +++G ++ + G P L
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV--S-GPPQSL------------ 386
Query: 488 DIEGFNNAMDEARERSRSAQNKQAGGAIVMDADATAALHKRGVLATDDSFKFIW------ 541
G N + +A+ S Q++ +R + KF
Sbjct: 387 --YGLNLTLRKAKAPSGLDQSR-------------IPFSERKL-------KFSNRFLPVA 424
Query: 542 --FQDHKSVIKAIYTGSEFIESVVPGNEVGIVLASSSFYAEQ-GGQIFDEGFIEGLFGSF 598
F H S + +V + SF A+ ++D +G
Sbjct: 425 SPF--H----------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD--TFDG----- 465
Query: 599 YVRNVQIYGGFVIHIGSLTEGAGRFSVGEEVICK--VDYDRRKLIAPNHTCTHMLNF 653
++++ G + + + I + V ++ TH+L+F
Sbjct: 466 --SDLRVLSGSISE--RIVD----------CIIRLPVKWET----TTQFKATHILDF 504
Score = 49.7 bits (118), Expect = 4e-06
Identities = 53/337 (15%), Positives = 103/337 (30%), Gaps = 119/337 (35%)
Query: 3 GLLRKTETASFVATARVL-LNP----SLTLAVTNHHHSLISRFSASAVAAMPGAD----- 52
G+ + A +V TA++L P S T H L+ +A A+A +
Sbjct: 242 GV---IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV---TAVAIAETDSWESFFVS 295
Query: 53 -PQVVEW------------PATKVRDTFFKFFEDKNHVNWKSSPVVPVNDPTL--LFAN- 96
+ + P T + + + + + SP++ +++ T +
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLPPSILE--DSLENNEGVPSPMLSISNLTQEQVQDYV 353
Query: 97 AGMNQYKP----IFLG----------TADP------NTQLSKL--------TRACNTQKC 128
N + P + + + P N L K +R +++
Sbjct: 354 NKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERK 413
Query: 129 IRAGGK--------HNDL-----DDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELL 175
++ + H+ L D + KD + + + +
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKD------------------LVKNNVSFNAKDI 455
Query: 176 TKVYRLPADRLYATYFGGD--EKAGLAPDNEARDI------W--LKFLPASRVLPFGCKD 225
++P +Y T+ G D +G + I W A+ +L FG
Sbjct: 456 ----QIP---VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG--- 505
Query: 226 NFWEMGDTGPCGPCSEIHYDRTGNR--DAASLVNNDD 260
G G + + D TG R A +L N D
Sbjct: 506 ----PGGASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
Score = 47.4 bits (112), Expect = 2e-05
Identities = 99/556 (17%), Positives = 173/556 (31%), Gaps = 179/556 (32%)
Query: 5 LRKTETASFVATARVLLNPSLTLAVTNHHHS---LISRF---SASAVAAMP-GADPQVVE 57
L++ F L P+ A + + L+ +F +S V G QV+
Sbjct: 33 LQE----QFNKI---LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLN 85
Query: 58 WPATKVRDTFFKFFEDK----NHVNWKSSPVVPVNDPTLLFANAGMNQYKP--IFLGTAD 111
FE+ N ++ ++ ++ ND TL+ + Y I
Sbjct: 86 --------LCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
Query: 112 PNTQLSKLTRACNTQKC-IRA--GGKHNDLDDVGKDTYHHTFFEM--LGNWSFGDY--FK 164
S L RA + A GG+ N D Y F E+ L + Y
Sbjct: 138 DKKSNSALFRAVGEGNAQLVAIFGGQGNT------DDY---FEELRDL----YQTYHVLV 184
Query: 165 NEAIEWAWELLTKVYRLPAD--RLYATYFGGD-----EKAGLAPDNEARDIWLKFLPASR 217
+ I+++ E L+++ R D +++ + E PD + +L +P S
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGL--NILEWLENPSNTPDKD----YLLSIPIS- 237
Query: 218 VLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLVNNDDPTCIEIWNIVFIQFNRE 277
P G HY T + P +
Sbjct: 238 -CPL--------------IGVIQLAHYVVTAK------LLGFTPG----------ELRSY 266
Query: 278 SDGSLKPLPAKHVDTGLGFERLTSILQNKMSNYDT-DVFMPIFDAIQQA------TGARP 330
G+ TG +T++ ++ D+ + F F ++++A G R
Sbjct: 267 LKGA----------TGHSQGLVTAVA---IAETDSWESF---FVSVRKAITVLFFIGVRC 310
Query: 331 YSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEG------------REYVLRR 378
Y AY + L +I + S NEG +E V
Sbjct: 311 YE-------------AYPNTS-----LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 379 ILRRAVRYGSEVLKAQDGFFNGLVNIVVKVMGDVFPE-LKQREAHIREIIAAEEAS---- 433
+ + + + + NG N+VV G P+ L +R+ A
Sbjct: 353 V-NKTNSHLPAGKQVEISLVNGAKNLVVS--G--PPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 434 -FGKTLLKGIEKF------------KKAA----QDVQGK--VLSGQDAFI-LWDTY-GFP 472
F + LK +F A+ +D+ + +D I ++DT+ G
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG-- 465
Query: 473 LDLTQLMAEERGLLVD 488
DL L +VD
Sbjct: 466 SDLRVLSGSISERIVD 481
Score = 37.3 bits (86), Expect = 0.022
Identities = 69/401 (17%), Positives = 113/401 (28%), Gaps = 114/401 (28%)
Query: 460 QDAFILW---DTYGFPLDLTQLMAEERGLLVDIEGFNNAMDEARERSRSAQNKQAGGAIV 516
Q+ F T GF D E L+ G+ + E S+ Q Q +
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAE--LVGKFLGY---VSSLVEPSKVGQFDQVLNLCL 88
Query: 517 MDADATAALHKRGV------LATDDSFKFIWFQDHKSVIKAIYTGSEFIESVVPGNEVGI 570
+ + L + L ++ + K +IK T +
Sbjct: 89 TEFE-NCYLEGNDIHALAAKLLQENDTTLV---KTKELIKNYITARIMAKRPFDKKSNSA 144
Query: 571 VLASSS-----FYAEQGGQIFDEGFIEGLFG---SFYVRNVQIYGGFVI--------HIG 614
+ + A GGQ G + F Y Q Y V +
Sbjct: 145 LFRAVGEGNAQLVAIFGGQ----GNTDDYFEELRDLY----QTYHVLVGDLIKFSAETLS 196
Query: 615 SLTEGAGR----FSVGEEVIC---------KVDYDRRKLIA-PNHTCTHMLNFA-LREVL 659
L F+ G ++ DY I+ P + ++ ++L
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLL 256
Query: 660 GDHVDQKGSVVLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEA-K 718
G P +LR + G + +V AE D S E+ K
Sbjct: 257 GFT---------PGELR-SYLKGA------TGHSQGLVTAVAIAETD--SWESFFVSVRK 298
Query: 719 CIN-----GLRA--VF----------------GEVYPDP-VRVVAIGRK-VEDLLAD--- 750
I G+R + E P P + + + ++ V+D +
Sbjct: 299 AITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS 358
Query: 751 --PENKEWLSISAELCGG--QYVAIMCSHSWSL-ALNCLLK 786
P K + IS L G V + SL LN L+
Sbjct: 359 HLPAGK-QVEIS--LVNGAKNLV--VSGPPQSLYGLNLTLR 394
Score = 33.9 bits (77), Expect = 0.26
Identities = 44/296 (14%), Positives = 86/296 (29%), Gaps = 95/296 (32%)
Query: 265 EIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFERLTSILQNKMSNYDTDVFMPIFD-AIQ 323
++WN +D H GF + I+ N N T F I+
Sbjct: 1644 DVWN--------RAD--------NHFKDTYGF-SILDIVINNPVNL-TIHFGGEKGKRIR 1685
Query: 324 QATGARPYSGKVGADDADKVDMAYRVVADHIRTLSFAIADGSCPGNEGREYVLRR----- 378
+ A + + D K + ++ + +H + +F + +L
Sbjct: 1686 ENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTF----------RSEKGLLSATQFTQ 1733
Query: 379 --ILRRAVRYGS-EVLKAQ-----DGFFNG--------LVNIVVKVMGDVFP-----ELK 417
+ + + E LK++ D F G L + DV E+
Sbjct: 1734 PALT--LMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA-----SLADVMSIESLVEV- 1785
Query: 418 QREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGFPLDLTQ 477
R + + G + A + S + + + +
Sbjct: 1786 ---VFYRGMTMQVAVPRDEL---GRSNYGMIAINPGRVAASFSQEALQY--------VVE 1831
Query: 478 LMAEERGLLVDIEGFNNAMDEARERSRSAQNKQ---AGGAIVMDADATAALHKRGV 530
+ + G LV+I +N +N+Q AG +D T L+ +
Sbjct: 1832 RVGKRTGWLVEIVNYN------------VENQQYVAAGDLRALDT-VTNVLNFIKL 1874
Score = 31.9 bits (72), Expect = 0.93
Identities = 55/340 (16%), Positives = 89/340 (26%), Gaps = 146/340 (42%)
Query: 186 LYATYFGGDEKAGLAPDNEARDIWLKFLPASRVLPFGCKDNFWEMGDTGPCGPCSEIHYD 245
LY T A+D+ W D H+
Sbjct: 1635 LYKTS------------KAAQDV-------------------WNRADN---------HFK 1654
Query: 246 RTGNRDAASLVNNDDPTCIEIW-----------NIVFIQFNRESDGSLKPLPA-KHVD-- 291
T +V N +P + I N + F DG LK K ++
Sbjct: 1655 DTYGFSILDIVIN-NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH 1713
Query: 292 -TGLGFE------RLTSILQNKMSNYDTDVFMP--------IFDAIQQATGARP------ 330
T F T Q P F+ ++ G P
Sbjct: 1714 STSYTFRSEKGLLSATQFTQ------------PALTLMEKAAFEDLKSK-GLIPADATFA 1760
Query: 331 ------YSGKVGADDADKVDMAYRVVADHIR--TLSFAIADGS--------CPGNEGREY 374
Y+ D ++ VV R T+ A+ N GR
Sbjct: 1761 GHSLGEYAALASLADVMSIESLVEVV--FYRGMTMQVAVPRDELGRSNYGMIAINPGR-- 1816
Query: 375 VLRRILRRAVRYGSEVLKAQDGFFNGLVN-------IVVKVMGDVFPELKQREAHIREII 427
V + A++Y E + + G+ +VN V GD +
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA--GD--------------LR 1860
Query: 428 AAEEASFGKTLLKGIEKFKK----------AAQDVQGKVL 457
A + + +L I K +K + ++V+G +
Sbjct: 1861 ALDTVT---NVLNFI-KLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 29.2 bits (65), Expect = 6.5
Identities = 21/108 (19%), Positives = 35/108 (32%), Gaps = 22/108 (20%)
Query: 98 GMNQY------KPIFLGTADPNTQ------LSKLTRACNTQKCIRAGGKHNDLDDVGKDT 145
GM+ Y + ++ AD + + + + I GG+ GK
Sbjct: 1632 GMDLYKTSKAAQDVW-NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK------GKRI 1684
Query: 146 YHHTFFEMLGNWSFGDYFKNEAI-EWAWELLTKV-YRLPADRLYATYF 191
+ + M+ K E I + E T +R L AT F
Sbjct: 1685 REN-YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731
>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 = 48.7 bits (115), Expect = 7e-06
Identities = 85/515 (16%), Positives = 150/515 (29%), Gaps = 164/515 (31%)
Query: 48 MPGADPQVVEWPATKV-RD-TFFKFFEDKNHVNWKSSPVVPVNDPTLLFAN--------- 96
+ G+ V A V + K + W + + N P +
Sbjct: 158 VLGSGKTWV---ALDVCLSYKVQCKMDFK--IFWLN--LKNCNSPETVLEMLQKLLYQID 210
Query: 97 ----AGMNQYKPIFLGTADPNTQLSKLTRACNTQKC--IRAGGKHNDLDDVGKDTYHHTF 150
+ + I L +L +L ++ + C + L +V
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV--------LLNV--------- 253
Query: 151 FEMLGNWSFGDYFKNEAIEWAWE--------LLTKVYRLPADRLYATY----FGGDEKAG 198
+ AW LLT ++ D L A
Sbjct: 254 ------QN----------AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 199 LAPDNEARDIWLKFL--PASRVLPFGCKDNFWEMGDTGPCGPCSEIHYDRTGNRDAASLV 256
L PD E + + LK+L LP E+ T P S I A S+
Sbjct: 298 LTPD-EVKSLLLKYLDCRPQD-LPR-------EVLTTNPRR-LSII---------AESI- 337
Query: 257 NNDDPTCIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFERLTSILQNKMSNYDTDVF- 315
D + W KHV+ ++LT+I+++ ++ + +
Sbjct: 338 -RDGLATWDNW--------------------KHVN----CDKLTTIIESSLNVLEPAEYR 372
Query: 316 -----MPIF--DA-IQQATGARPYSGKVGADDADKVD--MAYRVVADHIRTLSFAIADG- 364
+ +F A I + + + +D V+ Y +V + + +I
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 365 ---SCPGNEGREYVL-RRIL-----RRAVRYGSEVLKAQDG-FFN--G--LVNIVVKVMG 410
EY L R I+ + + D F++ G L NI
Sbjct: 433 LELKVKLEN--EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 411 DVFPELKQ--R--EAHIREIIAAEEASFGKT-LLKGIEKFKKAAQDVQG----------K 455
+F + R E IR A AS L+ ++ +K D
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
Query: 456 VLSGQDAFILWDTYGFPLDLTQ--LMAEERGLLVD 488
L + ++ Y DL + LMAE+ + +
Sbjct: 551 FLPKIEENLICSKY---TDLLRIALMAEDEAIFEE 582
Score = 46.8 bits (110), Expect = 3e-05
Identities = 94/671 (14%), Positives = 176/671 (26%), Gaps = 222/671 (33%)
Query: 138 LDDVGKDTYHHTFFEMLGNWSFGDYFKNEAIEWAWELLTKVYRLPAD--RLYATY----F 191
L ++ E+L +Y ++ + R P+ R+Y +
Sbjct: 71 LLSKQEEMVQKFVEEVLRI----NY------KFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 192 GGDEKAGLAPDNEARD-------IWLKFL-PASRVLPFGCKDNFWEMGDTGPCGPCSEIH 243
++ A N +R L L PA VL G + G G + +
Sbjct: 121 NDNQV--FAKYNVSRLQPYLKLRQALLELRPAKNVLIDG-------VL--G-SGK-TWV- 166
Query: 244 YDRTGNRDAASLVNNDDPTCIEIWNIVFIQF-NRESDGSLKPLPAKHVDTGLGFERLTSI 302
A + + C + I ++ N S ++ E L +
Sbjct: 167 --------ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-------------LEMLQKL 205
Query: 303 LQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADK------VDMAYR---VVADH 353
L N+ + + K+ Y +V +
Sbjct: 206 LYQIDPNW-------------TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252
Query: 354 IRTLSFAIA-DGSCPGNEGREYVLRRILRRAVRYGSEVLKAQDGFFNGLVNIVVK--VMG 410
++ A + SC +IL + + L +
Sbjct: 253 VQNAKAWNAFNLSC-----------KIL---------LTTRFKQVTDFLSAATTTHISLD 292
Query: 411 DVFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSG-----QDAFIL 465
L E ++ K L + + + LS +D
Sbjct: 293 HHSMTLTPDEV---------KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343
Query: 466 WDTYGFPL--DLTQLM---------AEERGLLVDIEGFN--------------NAMDEAR 500
WD + LT ++ AE R + + F + ++
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 501 ERSRSAQNKQAGGAIVMDADATAALHKRGVLATDDSFKFIWFQDHKSVIKAIYTGSEFIE 560
+V++ LHK ++ ++ I +IY +E
Sbjct: 404 VM------------VVVN-----KLHKYSLVEK-------QPKESTISIPSIY-----LE 434
Query: 561 SVVPGNEVG-----IVLASSSFYAEQGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIG- 614
V IV Y D+ L FY HIG
Sbjct: 435 LKVKLENEYALHRSIV----DHYNIPKTFDSDDLIPPYLDQYFYS-----------HIGH 479
Query: 615 --SLTEGAGRFSVGEEVICKVDYD--RRKLIAPNHTCTHMLNFA-LREVLGDHVDQKGSV 669
E R ++ V +D+ +K+ H T + L
Sbjct: 480 HLKNIEHPERMTLFRMVF--LDFRFLEQKIR---HDSTAWNASGSILNTLQQ-------- 526
Query: 670 VLPEKLRFDFSHGKPVDPEHLRRIESIVNEQIKAELDVF-SKEATLAEAKCINGLRAVFG 728
L+F + DP++ R + +I++ K E ++ SK L L A
Sbjct: 527 -----LKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI----ALMAEDE 577
Query: 729 EVYPDPVRVVA 739
++ + + V
Sbjct: 578 AIFEEAHKQVQ 588
>2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger,
structural genomics, PSI-2, protein structure
initiative; NMR {Methanocaldococcus jannaschii}
Length = 80
Score = 30.3 bits (69), Expect = 0.45
Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 16/61 (26%)
Query: 596 GSFY---VRNVQIYGGFV---------IHIGSLTEG-AGRFSVGEEVICKV---DYDRRK 639
G FY V ++ YG F+ + + +VG+E+I + ++R+
Sbjct: 6 GKFYKGVVTRIEKYGAFINLNEQVRGLLRPRDMISLRLENLNVGDEIIVQAIDVRPEKRE 65
Query: 640 L 640
+
Sbjct: 66 I 66
>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 = 31.5 bits (70), Expect = 0.52
Identities = 9/48 (18%), Positives = 18/48 (37%), Gaps = 21/48 (43%)
Query: 699 EQIKAELDVFSKEATLAEAKCINGLRAVFGEVY-PDPVRVVAIGRKVE 745
+ +K +L +A+L ++Y D +AI +E
Sbjct: 20 QALK-KL-----QASL--------------KLYADDSAPALAIKATME 47
>1im3_D Cytomegalovirus protein US2; beta sheet, beta sandwhich,
immunoglobulin (IG) fold, immunoglobulin (IG)-like
domain, protein complex; 2.20A {Human herpesvirus 5}
SCOP: b.1.18.5
Length = 95
Score = 30.1 bits (67), Expect = 0.69
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 1/55 (1%)
Query: 581 QGGQIFDEGFIEGLFGSFYVRNVQIYGGFVIHIGSLTEGAGRFSVGEEVICKVDY 635
G++F G I G F YGG ++ + F GE + V
Sbjct: 13 DNGKLFARGSIVGNMSRFVFDPKADYGGVGENLYVHADDV-EFVPGESLKWNVRN 66
>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic
hypermutat protein-DNA complex, DNA mispair, cancer;
HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B*
2o8e_B* 2o8f_B*
Length = 1022
Score = 31.6 bits (72), Expect = 1.4
Identities = 22/108 (20%), Positives = 41/108 (37%), Gaps = 13/108 (12%)
Query: 412 VFPELKQREAHIREIIAAEEASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGF 471
++ E + I + ++A E K + K I ++ A + K+L + + G
Sbjct: 506 MYEETTYSKKKIIDFLSALEGF--KVMCKIIGIMEEVADGFKSKILKQVISLQTKNPEGR 563
Query: 472 PLDLTQL-----------MAEERGLLVDIEGFNNAMDEARERSRSAQN 508
DLT A + GL+ GF++ D+A R +
Sbjct: 564 FPDLTVELNRWDTAFDHEKARKTGLITPKAGFDSDYDQALADIRENEQ 611
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 31.0 bits (71), Expect = 1.7
Identities = 14/79 (17%), Positives = 31/79 (39%), Gaps = 18/79 (22%)
Query: 678 DFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAKCINGLRAVF-GEVYPDPVR 736
DF + + + +IE + + + + + K + EA + +F + Y
Sbjct: 107 DFDIDQNISSDDFEQIEKTMKQIVNENMKIERKVVSRDEA------KELFSNDEY----- 155
Query: 737 VVAIGRKVEDLLADPENKE 755
K+E + A PE++
Sbjct: 156 ------KLELIDAIPEDEN 168
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 30.2 bits (69), Expect = 2.8
Identities = 9/41 (21%), Positives = 19/41 (46%)
Query: 678 DFSHGKPVDPEHLRRIESIVNEQIKAELDVFSKEATLAEAK 718
D + + E + +E ++E + DV K+ + EA+
Sbjct: 105 DVDLDRTLTQEDVEALEKRMHELAEKNYDVIKKKVSWHEAR 145
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 29.4 bits (66), Expect = 4.6
Identities = 23/110 (20%), Positives = 35/110 (31%), Gaps = 15/110 (13%)
Query: 681 HGKPVDPEHLRRIESIVNEQIKAELD-----VFSKEATLAEAKCINGLRAVFGEVYPDPV 735
PEH RI+SI + + L + ++A+L E L++V E +
Sbjct: 54 GDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEE------LQSVHSERHVLLY 107
Query: 736 RVVAIGRKVEDLLADPENKEWLSISAELCGGQYV----AIMCSHSWSLAL 781
+ R D CGG V HS + A
Sbjct: 108 GTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAAR 157
>1qme_A Penicillin-binding protein 2X; peptidoglycan synthesis, resistance,
cell WALL, transmembrane; 2.4A {Streptococcus
pneumoniae} SCOP: d.11.1.1 d.11.1.1 d.175.1.1 e.3.1.1
PDB: 1qmf_A* 1pyy_A* 1rp5_A 1pmd_A 1k25_A 2zc3_B*
2z2l_B* 2z2m_B* 2zc4_B* 2zc3_A* 2z2l_A* 2z2m_A* 2zc4_A*
2zc3_C* 2z2l_C* 2z2m_C* 2zc4_C*
Length = 702
Score = 29.7 bits (67), Expect = 4.8
Identities = 16/94 (17%), Positives = 30/94 (31%), Gaps = 22/94 (23%)
Query: 431 EASFGKTLLKGIEKFKKAAQDVQGKVLSGQDAFILWDTYGFPLDLT-----QLMAEERGL 485
E+S +L G + +D G ++ G + G + T Q E
Sbjct: 172 ESSLNS-ILAGTDGIITYEKDRLGNIVPGTEQVSQRTMDGKDVYTTISSPLQSFMET--- 227
Query: 486 LVDIEGFNNAMDEARERSRSAQNKQAGGAIVMDA 519
MD +E+ + + A ++ A
Sbjct: 228 ---------QMDAFQEKVKG----KYMTATLVSA 248
>1ojt_A Surface protein; redox-active center, glycolysis, oxidoreductase,
NAD, flavop FAD, P64K; HET: FAD; 2.75A {Neisseria
meningitidis} SCOP: c.3.1.5 c.3.1.5 d.87.1.1 PDB:
1bhy_A*
Length = 482
Score = 29.0 bits (66), Expect = 6.7
Identities = 15/54 (27%), Positives = 21/54 (38%), Gaps = 13/54 (24%)
Query: 319 FDAIQQATGARPYSGKVGADDAD---------KVDMAYRVVADHIRTLSFAIAD 363
+DA+ A G P + A+ A +VD R HI +AI D
Sbjct: 275 YDAVLVAAGRAPNGKLISAEKAGVAVTDRGFIEVDKQMRTNVPHI----YAIGD 324
>3kd4_A Putative protease; structural genomics, joint center for STR
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: MSE; 2.00A {Parabacteroides distasonis atcc
8503}
Length = 506
Score = 28.7 bits (63), Expect = 7.9
Identities = 12/127 (9%), Positives = 34/127 (26%), Gaps = 12/127 (9%)
Query: 241 EIHYDRTGNRDAASLVNNDDPT--CIEIWNIVFIQFNRESDGSLKPLPAKHVDTGLGFER 298
+ G+ A ++D + NI + + P T +
Sbjct: 154 PLACGLYGSPVKAVEESHDGIKEVHWTLRNIPASSREAFQPKNREASPHLVASTYPSGKA 213
Query: 299 LTSILQNKMSNYDTDVFMPIFDAIQQATGARPYSGKVGADDADKVDMAYRVVADHIRTLS 358
+ L ++ + ++ +KV++ + +++ T
Sbjct: 214 ALATLDKRLKESQGYESKTFAQFLTDK----------SGNEQEKVNIIRDHILNNLSTCP 263
Query: 359 FAIADGS 365
+A
Sbjct: 264 IPMAMTG 270
>1ebd_A E3BD, dihydrolipoamide dehydrogenase; redox-active center,
glycolysis, oxidoreductase; HET: FAD; 2.60A {Geobacillus
stearothermophilus} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 455
Score = 28.6 bits (65), Expect = 8.8
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 13/54 (24%)
Query: 319 FDAIQQATGARPYSGKVGADDAD---------KVDMAYRVVADHIRTLSFAIAD 363
D + G RP + ++G + +VD R +I FAI D
Sbjct: 259 ADYVLVTVGRRPNTDELGLEQIGIKMTNRGLIEVDQQCRTSVPNI----FAIGD 308
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
0.321 0.137 0.416
Gapped
Lambda K H
0.267 0.0874 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,659,810
Number of extensions: 817783
Number of successful extensions: 2145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2084
Number of HSP's successfully gapped: 57
Length of query: 787
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 686
Effective length of database: 3,881,772
Effective search space: 2662895592
Effective search space used: 2662895592
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 (27.0 bits)