RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781051|ref|YP_003065464.1| alpha-ketoglutarate
decarboxylase [Candidatus Liberibacter asiaticus str. psy62]
(957 letters)
>2jgd_A 2-oxoglutarate dehydrogenase E1 component; flavoprotein,
oxidoreductase, thiamine diphosphate, thiamine
pyrophosphate, adenosine monophosphate; HET: AMP; 2.6A
{Escherichia coli} PDB: 2jgd_B*
Length = 933
Score = 983 bits (2542), Expect = 0.0
Identities = 410/966 (42%), Positives = 566/966 (58%), Gaps = 46/966 (4%)
Query: 1 MLQDLNKMFSLSSFLDGTNCCYIEDLYKSYQEDPSSVCKDWYPLFSFLDENSEEYDNLED 60
M K + SS+L G N +IE LY+ + DP SV +W F L + D
Sbjct: 1 MQNSALKAWLDSSYLSGANQSWIEQLYEDFLTDPDSVDANWRSTFQQLPGTGVKPDQFHS 60
Query: 61 GIASFLKEESVASAVFSQKKSAVESSCSLGETQSVKDFFQVMKMIDAYRSYGHFKANIDP 120
+ + + K A S ++ + + +V+++I+AYR GH AN+DP
Sbjct: 61 QTREYFRRLA---------KDASRYSSTISDPDTNVKQVKVLQLINAYRFRGHQHANLDP 111
Query: 121 LGYNSHQKDLSELSPAHYGFVKADYDRKICMKGVL-GLESATIPEIVDVLSHLYCSNIGV 179
LG Q +++L P+ + +AD+ + G E+ + E+++ L YC IG
Sbjct: 112 LGL-WQQDKVADLDPSFHDLTEADFQETFNVGSFASGKETMKLGELLEALKQTYCGPIGA 170
Query: 180 EFMHIVDSIERDWVRNTIEDYDFSSNFSKEEQRDILDKLVRAEGFEKFIDIKYKGAKRFG 239
E+MHI + E+ W++ IE + F+ EE++ L +L AEG E+++ K+ GAKRF
Sbjct: 171 EYMHITSTEEKRWIQQRIES--GRATFNSEEKKRFLSELTAAEGLERYLGAKFPGAKRFS 228
Query: 240 ADGSEVIIPAIEEIIRQGVQQGVDEMILGMAHRGRLNVLSQIMNKLPRSIFYEFKGKGPS 299
+G + +IP ++E+IR G E++LGMAHRGRLNVL ++ K P+ +F EF GK
Sbjct: 229 LEGGDALIPMLKEMIRHAGNSGTREVVLGMAHRGRLNVLVNVLGKKPQDLFDEFAGK-HK 287
Query: 300 EKEYSGDVKYHLGLCCNRQICGKDVKLLLQSNPSHLEFVDPVVIGSVRARQDLKAGIVGE 359
E +GDVKYH+G + Q G V L L NPSHLE V PVVIGSVRAR D + E
Sbjct: 288 EHLGTGDVKYHMGFSSDFQTDGGLVHLALAFNPSHLEIVSPVVIGSVRARLD----RLDE 343
Query: 360 KSISLVERSRVLPLIIHGDAAFAGQGIVSETFGLSGLSGYTVAGNIHLIINNQIGFTT-N 418
++VLP+ IHGDAA GQG+V ET +S GY V G + ++INNQ+GFTT N
Sbjct: 344 P-----SSNKVLPITIHGDAAVTGQGVVQETLNMSKARGYEVGGTVRIVINNQVGFTTSN 398
Query: 419 PSSARSCTYASDISKSIGIPIFHVNGDDPEAVIRVVRMAVSFRMKFHKSVVIDIVCYRRF 478
P ARS Y +DI K + PIFHVN DDPEAV V R+A+ FR F + V ID+VCYRR
Sbjct: 399 PLDARSTPYCTDIGKMVQAPIFHVNADDPEAVAFVTRLALDFRNTFKRDVFIDLVCYRRH 458
Query: 479 GHNEGDEPSFTQPMMYKTIRSHKSVLQLYADSLMKNQVISKQELQSLANNWHKYLEAEYK 538
GHNE DEPS TQP+MY+ I+ H + ++YAD L + +V + ++ + N + L+A
Sbjct: 459 GHNEADEPSATQPLMYQKIKKHPTPRKIYADKLEQEKVATLEDATEMVNLYRDALDAGDC 518
Query: 539 ESESYCPEKLGLL-------HNGENERKNSVSKEILKKIGSSIIRLPKSFNTHKIVERLM 591
+ P + H + E N V + L+++ I +P++ V ++
Sbjct: 519 VVAEWRPMNMHSFTWSPYLNHEWDEEYPNKVEMKRLQELAKRISTVPEAVEMQSRVAKIY 578
Query: 592 ANRQKMIETGKGIDWSMAESLAFGSLCYEGYKVRLSGQDCERGTFSHRHAILCDQETGKR 651
+RQ M K DW AE+LA+ +L EG VRLSG+D RGTF HRHA++ +Q G
Sbjct: 579 GDRQAMAAGEKLFDWGGAENLAYATLVDEGIPVRLSGEDSGRGTFFHRHAVIHNQSNGST 638
Query: 652 YFPLGNISKDQGHCEVVNSFLSEQAVLGFEYGYSLNNLNALTIWEAQFGDFANGAQVILD 711
Y PL +I QG V +S LSE+AVL FEYGY+ LTIWEAQFGDFANGAQV++D
Sbjct: 639 YTPLQHIHNGQGAFRVWDSVLSEEAVLAFEYGYATAEPRTLTIWEAQFGDFANGAQVVID 698
Query: 712 QFITAGEQKWLCTSNLVCLLPHGYEGQGPEHSSARLERFLQMCAENNMYVANCTSPANYF 771
QFI++GEQKW LV LLPHGYEGQGPEHSSARLER+LQ+CAE NM V ++PA +
Sbjct: 699 QFISSGEQKWGRMCGLVMLLPHGYEGQGPEHSSARLERYLQLCAEQNMQVCVPSTPAQVY 758
Query: 772 HILRRQIYDRSSRPLIMMAPKSLLRHKRVVSSLSDMTCGSVFQAVLSDDAEYHGKTSVKL 831
H+LRRQ RPL++M+PKSLLRH VSSL ++ G+ F + + E
Sbjct: 759 HMLRRQALRGMRRPLVVMSPKSLLRHPLAVSSLEELANGT-FLPAIGEIDE--------- 808
Query: 832 KEDSHIRRVILCTGKVYYDLLDNRDMRNIADIYLLRIEQLYPFPEDYLIKVLSRFVQA-E 890
+ ++RV++C+GKVYYDLL+ R N D+ ++RIEQLYPFP + +VL +F +
Sbjct: 809 LDPKGVKRVVMCSGKVYYDLLEQRRKNNQHDVAIVRIEQLYPFPHKAMQEVLQQFAHVKD 868
Query: 891 IVWCQEEPQNMGAWTFIEPYLEKVLHSIGADYSRVRYVGRLPSASTAVGHMSRHLEQLSS 950
VWCQEEP N GAW + + +V+ + +RY GR SAS AVGHMS H +Q
Sbjct: 869 FVWCQEEPLNQGAWYCSQHHFREVI----PFGASLRYAGRPASASPAVGHMSVHQKQQQD 924
Query: 951 FIEDAL 956
+ DAL
Sbjct: 925 LVNDAL 930
>1umd_A E1-alpha, 2-OXO acid dehydrogenase alpha subunit; alpha(2)beta(2)
tetramer, structural genomics; HET: TDP; 1.90A {Thermus
thermophilus} SCOP: c.36.1.11 PDB: 1um9_A* 1umc_A*
1umb_A*
Length = 367
Score = 77.3 bits (189), Expect = 1e-14
Identities = 54/350 (15%), Positives = 110/350 (31%), Gaps = 40/350 (11%)
Query: 201 DFSSNFSKEEQRDILDKLVRAEGFEKFIDIKYKGAKRFG---ADGSEVIIPAIEEIIRQG 257
DF + E+ R + ++ A ++ I + K A G E AI IR G
Sbjct: 28 DFPLDLEGEKLRRLYRDMLAARMLDERYTILIRTGKTSFIAPAAGHEAAQVAIAHAIRPG 87
Query: 258 VQQGVDEMILGMAHRGRLNVLSQIMNKLPRSIFYEFKGKGPSEKEYSGDVKYHLGLCCNR 317
+ + +R L+ + + + + D + +
Sbjct: 88 -----FDWVFPY-YRDHGLALA--LGIPLKELLGQMLA-------TKADPNKGRQMPEHP 132
Query: 318 QICGKDVKLLLQSNPSHLEFVDPVVIGSVRARQDLKAGIVGEKSISLVERSRVLPLIIHG 377
+ + S + P G+ + + L+ G V +
Sbjct: 133 GSKALNF----FTVASPIASHVPPAAGAAISMKLLRTGQVA---------------VCTF 173
Query: 378 DAAFAGQGIVSETFGLSGLSGYTVAGNIHLIINNQIGFTTNPSSARSCTYASDISKSIGI 437
+G + + G + + NN + + +D + + GI
Sbjct: 174 GDGATSEGDWYAGINFAAVQGAP---AVFIAENNFYAISVDYRHQTHSPTIADKAHAFGI 230
Query: 438 PIFHVNGDDPEAVIRVVRMAVSFRMKFHKSVVIDIVCYRRFGHNEGDEPSFTQPMMYKTI 497
P + V+G D A VV+ AV + ++++ YR H+ D+ S +P
Sbjct: 231 PGYLVDGMDVLASYYVVKEAVERARRGEGPSLVELRVYRYGPHSSADDDSRYRPKEEVAF 290
Query: 498 RSHKSVLQLYADSLMKNQVISKQELQSLANNWHKYLEAEYKESESYCPEK 547
K + + L + +++ + + LE KE+E P
Sbjct: 291 WRKKDPIPRFRRFLEARGLWNEEWEEDVREEIRAELERGLKEAEEAGPVP 340
>1ik6_A Pyruvate dehydrogenase; E1BETA, tetramer, GXXXG, oxidoreductase;
2.00A {Pyrobaculum aerophilum} SCOP: c.36.1.7 c.48.1.2
Length = 369
Score = 73.6 bits (180), Expect = 2e-13
Identities = 45/270 (16%), Positives = 97/270 (35%), Gaps = 24/270 (8%)
Query: 657 NISKDQGHCEVVNSFLSEQAVLGFEYGYSLNNLNALTIWEAQFGDFANGAQVILDQFITA 716
+ + G V+++ L+E +LGF G ++ L + + + +++
Sbjct: 90 GLYERFGPERVIDTPLNEGGILGFAMGMAMAGLKPVAEIQFVDFIWLGADELLNHIAKLR 149
Query: 717 GEQKWLCTSNLVCLLPHGYEGQGPEHSSARLERFLQMCAENNMYVANCTSPANYFHILRR 776
+ LV P G +G + S E + V ++P N +L+
Sbjct: 150 YRSGGNYKAPLVVRTPVGSGTRGGLYHSNSPEAIFVHTP--GLVVVMPSTPYNAKGLLKA 207
Query: 777 QIYDRSSRPLIMMAPKSLLRHKRVVSSLSDMTCGSVFQAVLSDDAEYHGKTSVKLKEDSH 836
I P++ + PK L R R + V D + +E
Sbjct: 208 AIRGD--DPVVFLEPKILYRAPR--------------EEVPEGDYVVEIGKARVAREGDD 251
Query: 837 IRRVILCTGKVYYDLLDNRDMRNIADIYLLRIEQLYPFPEDYLIKVLSRFVQAEIVWCQE 896
+ ++ G V + L+ + + ++ ++ L P D ++K +S+ ++ +
Sbjct: 252 V--TLVTYGAVVHKALEAAERVKA-SVEVVDLQTLNPLDFDTVLKSVSKT--GRLIIAHD 306
Query: 897 EPQNMGAWTFIEPYL-EKVLHSIGADYSRV 925
P+ G + + EK L + A R+
Sbjct: 307 SPKTGGLGAEVRALVAEKALDRLTAPVIRL 336
>1qs0_A 2-oxoisovalerate dehydrogenase alpha-subunit; heterotetramer, THDP
cofactor, oxidoreductase; HET: TDP; 2.40A {Pseudomonas
putida} SCOP: c.36.1.11 PDB: 2bp7_A
Length = 407
Score = 71.3 bits (174), Expect = 1e-12
Identities = 52/343 (15%), Positives = 110/343 (32%), Gaps = 42/343 (12%)
Query: 205 NFSKEEQRDILDKLVRAEGFEKFIDIKYKGAKRFG---ADGSEVIIPAIEEIIRQGVQQG 261
+ + R + +++ F+ + + + K + G E I + +
Sbjct: 70 DIDPQILRQGMRAMLKTRIFDSRMVVAQRQKKMSFYMQSLGEEAIGSGQALALNR----- 124
Query: 262 VDEMILGMAHRGRLNVLSQIMNKLPRSIFYEFKGKGPSEKEYSGDVKYHLGLCCNRQICG 321
+M +R + +++ + + + + G
Sbjct: 125 -TDMCFPT-YRQQSILMA--RDVSLVEMICQLLSN------------------ERDPLKG 162
Query: 322 KDVKLLLQSNPSHLEFVDPVVIGSVRARQDLKAGIVGEKSISLVERSRVLPLIIHGDAAF 381
+ + ++ + + + VG S ++ + GD A
Sbjct: 163 RQLPIMYSVREAGFFTISGNLATQF-------VQAVGWAMASAIKGDTKIASAWIGDGAT 215
Query: 382 AGQGIVSETFGLSGLSGYTVAGNIHLIINNQIGFTTNPSSARS-CTYASDISKSIGIPIF 440
A + + + V I ++NNQ +T + A T + GI
Sbjct: 216 A-ESDFHTALTFAHVYRAPV---ILNVVNNQWAISTFQAIAGGESTTFAGRGVGCGIASL 271
Query: 441 HVNGDDPEAVIRVVRMAVSFRMKFHKSVVIDIVCYRRFGHNEGDEPSFTQPMMYKTIRSH 500
V+G+D AV R A + +I+ V YR H+ D+PS +P +
Sbjct: 272 RVDGNDFVAVYAASRWAAERARRGLGPSLIEWVTYRAGPHSTSDDPSKYRPADDWSHFPL 331
Query: 501 KSVLQLYADSLMKNQVISKQELQSLANNWHKYLEAEYKESESY 543
+ L+K S++E Q+ + + A KE+E Y
Sbjct: 332 GDPIARLKQHLIKIGHWSEEEHQATTAEFEAAVIAAQKEAEQY 374
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 67.7 bits (165), Expect = 1e-11
Identities = 89/511 (17%), Positives = 142/511 (27%), Gaps = 210/511 (41%)
Query: 320 CGKDVKLLLQSNPSHLEFVDPVVIGSVRARQDL-----KAGIVGEKSISLVERSRVLPLI 374
G D+ L + ++ ++L A I+ ++ S + +
Sbjct: 97 EGNDIHALAAKLLQEND-------TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 375 IHGD----AAFAGQGIVSETFG-LSGLSGYTV-----------AGNI--HLIINNQI--- 413
G+ A F GQG + F L L Y + LI
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDL--YQTYHVLVGDLIKFSAETLSELIRTTLDAEK 207
Query: 414 ----GFT-----TNPSSARSCTYASDISKSIGIPI------------FHVNGDDPEAVIR 452
G NPS+ Y +S I P+ + G P +
Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYL--LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRS 265
Query: 453 ------------VVRMAV-------SFRMKFHKSVV----IDIVCYRRFG---------- 479
V +A+ SF + K++ I + CY +
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Query: 480 ----HNEGDEPSFTQPMMYKTIRS-HKSVLQLYAD--------------SLM---KNQVI 517
+NEG PS PM+ +I + + +Q Y + SL+ KN V+
Sbjct: 326 DSLENNEG-VPS---PML--SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV 379
Query: 518 S--KQELQSLANNWHKYLEAEYKESESYCPEKLGLLHNGENERK----N----------- 560
S Q L L K +A +S P ERK N
Sbjct: 380 SGPPQSLYGLNLTLRK-AKAPSGLDQSRIPFS---------ERKLKFSNRFLPVASPFHS 429
Query: 561 ----SVSKEILKKIGSSIIRLPKS------FNTH----------KIVERLMANRQKMIET 600
S I K + + + ++T I ER++ I
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIV----DCI-I 484
Query: 601 GKGIDWSMAES------LAFGSLCYEGYKVRLSGQDCERGTFSHRHAILCDQE-TGKRYF 653
+ W L FG G SG G +HR +++ TG R
Sbjct: 485 RLPVKWETTTQFKATHILDFGP----G---GASGL----GVLTHR-----NKDGTGVRVI 528
Query: 654 PLGNISKDQGHCEVVNSFLSEQAVLGFEYGY 684
G + D + +YG+
Sbjct: 529 VAGTL--DINP----DD----------DYGF 543
Score = 62.7 bits (152), Expect = 4e-10
Identities = 98/579 (16%), Positives = 160/579 (27%), Gaps = 223/579 (38%)
Query: 485 EPSFTQPMMYKTIRSHKSVLQLYADSLMK-----NQVISKQELQSLANNWHKYL-----E 534
E P S QL + E + A K+L
Sbjct: 17 EHVLLVP-----TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSL 71
Query: 535 AEYKESESYCPEKLGLLHNGENERKNSVSKEILKKIGSSIIRLPKSFNTHKIVERLMANR 594
E + + + L L E E L+ G+ I H + +L+
Sbjct: 72 VEPSKVGQF-DQVLNLCLT-EFEN------CYLE--GNDI---------HALAAKLLQEN 112
Query: 595 QKMIETGKGIDWSMAESLAFGSLCYEGYK-VRLSGQDCERGTFSHRHAILCDQETGKRYF 653
+ K + + Y ++ + ++ A+ G
Sbjct: 113 DTTLVKTKEL-------IK----NY--ITARIMAKRPFDK---KSNSALFRAVGEGN--A 154
Query: 654 PLGNISKDQGHCE---------------VVNSFLSEQAVLGFEYGYSLNNLNALTI-WEA 697
L I QG+ + +V + A L+ L T+ E
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET-------LSELIRTTLDAEK 207
Query: 698 QFGDFANGAQVILDQFITAGEQKWLCTSN----------------LVCL--LPHGYE--- 736
F G L+ I +WL + L+ + L H Y
Sbjct: 208 VFT---QG----LN--I----LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH-YVVTA 253
Query: 737 ---GQGP-E----------HS----SARLERFLQMCAENNMYVANCTSPANY-------- 770
G P E HS +A A +A S ++
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLVTA--------VA-----IAETDSWESFFVSVRKAI 300
Query: 771 ---FHI-LR-RQIYDRSSRPLIMMA---------PKSLLRHKRVVSSLSDMTCGSVFQAV 816
F I +R + Y +S P ++ P +L S+S++T Q
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML-------SISNLT-----QEQ 348
Query: 817 LSDDAEYHGKTSVKLKEDSHI-------RRVILCTG--KVYYDLLDNRDMRNI-ADIYLL 866
+ +Y KT+ L + + ++ +G + Y L N +R A L
Sbjct: 349 V---QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL--NLTLRKAKAPSGLD 403
Query: 867 --RIEQLYPFPEDYLIKVLSRF--VQAEIVWCQEEPQNMGAWTFIEPYLEKVLHSIGADY 922
RI PF E L K +RF V + P F L I D
Sbjct: 404 QSRI----PFSERKL-KFSNRFLPVAS--------P-------FHSHLLVPASDLINKDL 443
Query: 923 SR--VRYVG---RLPSASTAVGHMSRHLEQLSSFIEDAL 956
+ V + ++P T G L LS I + +
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDG---SDLRVLSGSISERI 479
Score = 60.3 bits (146), Expect = 2e-09
Identities = 98/616 (15%), Positives = 159/616 (25%), Gaps = 260/616 (42%)
Query: 372 PLII-HGDAAF-----------AGQGIVSETFGLSGLSGYT--VAGN------IHLIINN 411
PL + HG A Q + E F L T A + L+
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQ--LQEQF-NKILPEPTEGFAADDEPTTPAELVGK- 63
Query: 412 QIGFTTNPSSARSCTYASDISKSIGIPIFHVN---GDDPEAVIRVVRMAVSFRMKFHKSV 468
+G+ ++ + + F G+D A+ ++ K+
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLC-LTEFENCYLEGNDIHAL--AAKLLQENDTTLVKTK 120
Query: 469 VIDIVCYRRFGHNEGDE-PSFTQPMMYKTIRSHKSVLQLYADSLMKNQVISKQ------- 520
+ I Y + +++ + + QL A + Q
Sbjct: 121 EL-IKNYITARIMAKRPFDKKSNSALFRAVGEGNA--QLVA-------IFGGQGNTDDYF 170
Query: 521 -ELQSLANNWHKY-----------------LEAEYKESESYCPEKLGLLH--NGENERKN 560
EL+ L + Y L ++E + L +L + +
Sbjct: 171 EELRDL---YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 561 S-------VSKEILKKIGSSIIRL-------------PKSFNTHKIVERLMANRQKMIET 600
+S IG +I+L P L T
Sbjct: 228 KDYLLSIPIS---CPLIG--VIQLAHYVVTAKLLGFTPGELR-----SYLKGA------T 271
Query: 601 G--KGI----------DWS-------MAESLAF--GSLCYEGYKVRLS-----GQDCER- 633
G +G+ W A ++ F G CYE Y S +D
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP-NTSLPPSILEDSLEN 330
Query: 634 --GTFSHRHAILCDQETGKRYFPLGNISKD--QGHCEVVNSFL--SEQAVLGFEYGYSLN 687
G S +I N++++ Q + NS L +Q + SL
Sbjct: 331 NEGVPSPMLSI--------S-----NLTQEQVQDYVNKTNSHLPAGKQVEI------SL- 370
Query: 688 NLNALTIWEAQFGDFANGAQVILDQFITAGEQKWLCTSNLVCLL-----PHGYEGQG--P 740
NGA + +G + L L L P G Q P
Sbjct: 371 ---------------VNGA----KNLVVSGPPQSLY--GLNLTLRKAKAPSG-LDQSRIP 408
Query: 741 EHSSARLE---RFLQMCAENNMYVANCTSPANYFHILRRQIYDRSSRPLIMMAPKSLLRH 797
S +L+ RFL + SP FH S LL
Sbjct: 409 -FSERKLKFSNRFLPV-----------ASP---FH----------S---------HLLV- 433
Query: 798 KRVVSSLSDMTCGSVFQAVLSDDAEYHGKTSVKLK-EDSHIRRVILCTGKVYYDLLDNRD 856
+ D + + V +D I VY D D D
Sbjct: 434 -------------PASDLINKDLVKNN----VSFNAKDIQI--------PVY-DTFDGSD 467
Query: 857 MRNI-ADIYLLRIEQL 871
+R + I E++
Sbjct: 468 LRVLSGSI----SERI 479
Score = 48.8 bits (116), Expect = 5e-06
Identities = 92/569 (16%), Positives = 165/569 (28%), Gaps = 257/569 (45%)
Query: 12 SSFLDGTNCCYIEDLYKSYQEDP-------SSVCKDWYPLFSFLDENSEE------YDNL 58
+ +L+G + I L ++ + K++ ++ + +
Sbjct: 93 NCYLEGND---IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 59 EDGIASFLKEESVASAVFS-QKKSAVESSCSLGETQSVKDFFQVMKMIDAYRSYGHFKAN 117
+G A + A+F Q G T D+F+ ++ D Y++Y
Sbjct: 150 GEGNAQLV-------AIFGGQ-----------GNTD---DYFE--ELRDLYQTYHVL--- 183
Query: 118 IDPLGYNSHQKDLSELSPAHYGFVKADYDR-KICMKG--VLG-------------LESAT 161
+ L S + LSEL + D K+ +G +L L S
Sbjct: 184 VGDLIKFS-AETLSELI-------RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP 235
Query: 162 I--PEI--VDVLSHLY--CSNIGV---EFM--------H---IV--------DSIERDWV 193
I P I + L+H +G E H +V DS W
Sbjct: 236 ISCPLIGVIQ-LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS----W- 289
Query: 194 RNTIEDYDFSSNFSKEEQRDILDKLVRAEGFEKFIDIKYKGAKRFGADGSEVIIPAIEEI 253
E F + R + L F FI G + + A + + P+I
Sbjct: 290 ----ES--FFVSV-----RKAITVL-----F--FI-----GVRCYEAYPNTSLPPSI--- 323
Query: 254 IRQGVQQGVDE-------M--ILGMAHRGRLNVLSQIMNK-LPRSIFYEFKGKGPSEKEY 303
++ ++ M I + + ++ N LP
Sbjct: 324 ----LEDSLENNEGVPSPMLSISNL-TQEQVQDYVNKTNSHLPAG--------------- 363
Query: 304 SGDVKYHLGLCCNRQICGKDVKLLLQSNPSHLEFVDPVVIG--------SVRARQDLKAG 355
+Q+ + L + +L VV G ++ R KA
Sbjct: 364 -------------KQVE-----ISLVNGAKNL-----VVSGPPQSLYGLNLTLR-KAKAP 399
Query: 356 IVGEKS-ISLVER-----SRVLPLIIHGDAAFAGQGIVSETFGLSGLSGYTVAGNIHLII 409
++S I ER +R LP V+ F L + +I
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLP--------------VASPFHSHLLVPASD------LI 439
Query: 410 NNQIGFTTNPSSARSCTYASDIS---KSIGIPIFH-VNGDD----PEAVI-RVVRM---- 456
N + +++S K I IP++ +G D ++ R+V
Sbjct: 440 NKDLV-------------KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 457 ------AVSFRMKFHKSVVIDIVCYRRFG 479
F+ H ++D FG
Sbjct: 487 PVKWETTTQFKAT-H---ILD------FG 505
Score = 39.9 bits (93), Expect = 0.002
Identities = 59/339 (17%), Positives = 87/339 (25%), Gaps = 158/339 (46%)
Query: 63 ASFLKEESVASAV---F-----SQK--------KSAVESSCSLGETQ-----SVKDFF-- 99
SF SV A+ F + S +E S E S+ +
Sbjct: 290 ESF--FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 100 QVMKMIDAYRSYGHFKANIDPLGYNSHQKDLSE-----LS------------PAH--YGF 140
QV ++ NSH L +S P YG
Sbjct: 348 QVQDYVNKT---------------NSH---LPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 141 VKADYDRKICMKGVLGLESATIPEIVDVLSH----LYCSN----IGVEFMHIVDSIERDW 192
RK K GL+ + IP L SN + F H
Sbjct: 390 NL--TLRKA--KAPSGLDQSRIP-------FSERKLKFSNRFLPVASPF-H--------- 428
Query: 193 VRNTIEDYDFSSNFSKEEQRDILDKLVRAEGFEKFIDIKYKGAK-RF-------GAD--- 241
S I LV+ ++ + + G+D
Sbjct: 429 ----------SHLLVPASDL-INKDLVKN-------NVSFNAKDIQIPVYDTFDGSDLRV 470
Query: 242 GSEVIIPAIEEIIRQGVQQGVD-EMILGM--AHRGRLNVLSQIMNKLPRSIFYEFKGKGP 298
S I I + ++ V E H +L +F G G
Sbjct: 471 LSGSISERI---VDCIIRLPVKWETTTQFKATH-----IL-------------DF-GPGG 508
Query: 299 SEKEYSGDVKYHLGLCCNRQICGKDVKLL----LQSNPS 333
+ SG LG+ +R G V+++ L NP
Sbjct: 509 A----SG-----LGVLTHRNKDGTGVRVIVAGTLDINPD 538
Score = 29.5 bits (66), Expect = 3.2
Identities = 33/160 (20%), Positives = 58/160 (36%), Gaps = 49/160 (30%)
Query: 177 IGVEFMHIVDSIERDWVR--NTIED-YDFS------SN-------FSKEEQRDILDKLVR 220
+G++ + + W R N +D Y FS +N F E+ + I +
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY-S 1689
Query: 221 AEGFEKFIDIKYKGAKRFGADGSEVIIPAIEEIIRQGVQQGVDEMILGMAHRGRLNVLSQ 280
A FE +D K K E+I ++ ++E R +LS
Sbjct: 1690 AMIFETIVDGKLK----------------TEKIFKE-----INEHSTSYTFRSEKGLLSA 1728
Query: 281 IMNKLP------RSIFYEFKGKG--PSEKEYSGDVKYHLG 312
P ++ F + K KG P++ ++G + LG
Sbjct: 1729 TQFTQPALTLMEKAAFEDLKSKGLIPADATFAG---HSLG 1765
>2bfd_A 2-oxoisovalerate dehydrogenase alpha subunit; oxidoreductase,
ketoacid dehydrogenase, branched-chain, multi- enzyme
complex, acylation; HET: TDP; 1.39A {Homo sapiens} SCOP:
c.36.1.11 PDB: 1v16_A* 2bfc_A* 1v1r_A* 1olu_A* 2bfb_A*
1v1m_A* 2bew_A* 1dtw_A* 1olx_A* 1ols_A* 1wci_A* 1x80_A*
2beu_A* 1u5b_A* 2bev_A* 1v11_A* 1x7x_A* 1x7y_A* 1x7w_A*
1x7z_A* ...
Length = 400
Score = 50.6 bits (120), Expect = 2e-06
Identities = 20/139 (14%), Positives = 48/139 (34%), Gaps = 1/139 (0%)
Query: 405 IHLIINNQIGFTTNPSSARSCTYASDISKSIGIPIFHVNGDDPEAVIRVVRMAVSFRMKF 464
I NN +T S + GI V+G+D AV + A +
Sbjct: 216 IFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAE 275
Query: 465 HKSVVIDIVCYRRFGHNEGDEPSFTQPM-MYKTIRSHKSVLQLYADSLMKNQVISKQELQ 523
++ +I+ + YR + D+ S + + + L+ +++ +
Sbjct: 276 NQPFLIEAMTYRIGHASTSDDSSAFRSVDEVNYWDKQDHPISRLRHYLLSQGWWDEEQEK 335
Query: 524 SLANNWHKYLEAEYKESES 542
+ + + ++++E
Sbjct: 336 AWRKQSRRKVMEAFEQAER 354
>1yd7_A 2-keto acid:ferredoxin oxidoreductase subunit alpha; structural
genomics, southeast collaboratory for structural
genomics, secsg; 2.30A {Pyrococcus furiosus}
Length = 395
Score = 34.4 bits (78), Expect = 0.13
Identities = 18/109 (16%), Positives = 41/109 (37%), Gaps = 10/109 (9%)
Query: 840 VILCTGKVYYDLLDNRDMRNIADIY--LLRIEQLYPFPEDYLIKVLSRFVQAEIVWCQEE 897
++ TG V L M I LL+IE ++PF + + ++ R + ++ E
Sbjct: 295 GVVATGIVARSALRAVKMLREEGIKAGLLKIETIWPFDFELIERIAER---VDKLYVPEM 351
Query: 898 PQNMGAWTFIEPYLEKVLHSIGADYSRVRYVGRLPSASTAVGHMSRHLE 946
N+G + +++ + + G + + + R +
Sbjct: 352 --NLGQ---LYHLIKEGANGKAEVKLISKIGGEVHTPMEIFEFIRREFK 395
>1wky_A Endo-beta-1,4-mannanase; TIM barrel, catalytic domain, CBM,
hydrolase; 1.65A {Bacillus SP} SCOP: b.18.1.31 c.1.8.3
Length = 464
Score = 33.0 bits (74), Expect = 0.36
Identities = 4/31 (12%), Positives = 11/31 (35%)
Query: 731 LPHGYEGQGPEHSSARLERFLQMCAENNMYV 761
+ GQ + + + + +NN+
Sbjct: 58 IVLSDGGQWTKDDIQTVRNLISLAEDNNLVA 88
>2whl_A Beta-mannanase, baman5; glycoside hydrolase, hydrolase; HET: MAN
BMA; 1.40A {Bacillus agaradhaerens} PDB: 2whj_A
Length = 294
Score = 32.1 bits (72), Expect = 0.53
Identities = 20/197 (10%), Positives = 52/197 (26%), Gaps = 12/197 (6%)
Query: 731 LPHGYEGQGPEHSSARLERFLQMCAENNMYVANCTSPANYFHILRRQIYDRSSRPLIMMA 790
+ GQ + + +++ +N M A + A
Sbjct: 50 IVLSDGGQWEKDDIDTIREVIELAEQNKMVAVVEVHDATGRDSRSDLNRAVDYWIEMKDA 109
Query: 791 PKSLLRHKRVVSSLSDMTCGSVFQAVLSDDAEYHGKTSVKLKEDSHIRRVILCTGKVYYD 850
+ V+ ++++ GS + +D + G+
Sbjct: 110 LIG--KEDTVIINIANEWYGSWDGSAWADGYIDVIPKLRDAGLTHTLMVDAAGWGQYPQS 167
Query: 851 LLDNRDMRNIAD-----IYLLRIEQLYPFPEDYLIKVLSRFVQAEI-VWCQE--EPQNMG 902
+ D AD ++ + + + + + + R + ++ + E
Sbjct: 168 IHDYGQDVFNADPLKNTMFSIHMYEYAGGDANTVRSNIDRVIDQDLALVIGEFGHRHTDV 227
Query: 903 AWTFIEPYLEKVLHSIG 919
I Y E+ G
Sbjct: 228 DEDTILSYSEE--TGTG 242
>2c42_A Pyruvate-ferredoxin oxidoreductase; 4Fe-4S, iron, iron-sulfur,
iron-sulfur cluster, pyruvate catabolism, TPP-dependent
enzyme; HET: TPP; 1.78A {Desulfovibrio africanus} SCOP:
c.36.1.8 c.36.1.12 c.48.1.3 c.64.1.1 d.58.1.5 PDB:
1b0p_A* 1kek_A* 2c3o_A* 2c3p_A* 2c3u_A* 2c3y_A* 2c3m_A*
2pda_A* 2uza_A*
Length = 1231
Score = 31.9 bits (72), Expect = 0.76
Identities = 9/57 (15%), Positives = 18/57 (31%), Gaps = 2/57 (3%)
Query: 838 RRVILCTGKVYYDLLDNRDMRNIADIY--LLRIEQLYPFPEDYLIKVLSRFVQAEIV 892
RVI+ G + + + L+++ PF + L + V
Sbjct: 269 ERVIVSMGSSCETIEEVINHLAAKGEKIGLIKVRLYRPFVSEAFFAALPASAKVITV 325
>1bqc_A Protein (beta-mannanase); glycosyl hydrolase, family 5; 1.50A
{Thermomonospora fusca} SCOP: c.1.8.3 PDB: 2man_A*
3man_A*
Length = 302
Score = 31.4 bits (70), Expect = 1.1
Identities = 5/61 (8%), Positives = 18/61 (29%), Gaps = 1/61 (1%)
Query: 731 LPHGYEGQGPEHSSARLERFLQMCAENNMYV-ANCTSPANYFHILRRQIYDRSSRPLIMM 789
+ + ++ + + + +C +N + Y D++ I +
Sbjct: 51 VVLSNGVRWSKNGPSDVANVISLCKQNRLICMLEVHDTTGYGEQSGASTLDQAVDYWIEL 110
Query: 790 A 790
Sbjct: 111 K 111
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 30.6 bits (68), Expect = 1.8
Identities = 34/162 (20%), Positives = 63/162 (38%), Gaps = 52/162 (32%)
Query: 414 GFTTNPSSARSCTYASDISKSIGIPIFHVNGDDPEAVIRVVRMAVSFRMKFHKSVVIDIV 473
GF + +D++ +G+PI+ +V MA + K +SV
Sbjct: 1176 GFMEAQGAGIQIIMQADLALKMGVPIYG-----------IVAMAATATDKIGRSV----- 1219
Query: 474 CYRRFGHNEGDEPSFTQPMMYKTIRSHKSVLQLYADSL----MKNQVISKQ--------- 520
P+ + ++ T R H S ++ + +L K Q+++++
Sbjct: 1220 ------------PAPGKGIL-TTAREHHSSVKYASPNLNMKYRKRQLVTREAQIKDWVEN 1266
Query: 521 ELQSLANNWHKYLEAEYKESE---SYCPEKLGLLHNGENERK 559
EL++L LEAE SE + E+ +HN E E +
Sbjct: 1267 ELEALK------LEAEEIPSEDQNEFLLERTREIHN-EAESQ 1301
>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 = 30.4 bits (67), Expect = 2.3
Identities = 5/15 (33%), Positives = 11/15 (73%)
Query: 495 KTIRSHKSVLQLYAD 509
+ ++ ++ L+LYAD
Sbjct: 20 QALKKLQASLKLYAD 34
>1wxn_A Toxin apetx2; anthopleura elegantissima toxin 2, ASIC, acid-
sensing ION channel; NMR {Anthopleura elegantissima}
Length = 42
Score = 30.0 bits (67), Expect = 2.7
Identities = 9/29 (31%), Positives = 19/29 (65%)
Query: 287 RSIFYEFKGKGPSEKEYSGDVKYHLGLCC 315
+ I++ ++ P+++ Y+G +Y LG CC
Sbjct: 10 KGIYWFYRPSCPTDRGYTGSCRYFLGTCC 38
>1wqk_A Toxin apetx1; SEA anemone toxin, structure determination, potassium
channel inhibitor, HERG; NMR {Anthopleura elegantissima}
Length = 42
Score = 30.0 bits (67), Expect = 2.7
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 287 RSIFYEFKGKGPSEKEYSGDVKYHLGLCC 315
I++ PS + Y+G Y LG+CC
Sbjct: 10 IGIYWFGTKTCPSNRGYTGSCGYFLGICC 38
>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase
paralog, translation, lysyl- synthetase, lysyladenylate
analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A*
3g1z_A*
Length = 345
Score = 29.7 bits (66), Expect = 3.0
Identities = 14/94 (14%), Positives = 29/94 (30%)
Query: 474 CYRRFGHNEGDEPSFTQPMMYKTIRSHKSVLQLYADSLMKNQVISKQELQSLANNWHKYL 533
+R P FT Y+ ++ D L + E S + +YL
Sbjct: 118 SFRNEEMGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQVLDCPAAESLSYQQAFLRYL 177
Query: 534 EAEYKESESYCPEKLGLLHNGENERKNSVSKEIL 567
E + ++ ++ + N ++ L
Sbjct: 178 EIDPLSADKTQLREVAAKLDLSNVADTEEDRDTL 211
>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active
site, N-glycosylation, calcium cation, chloride anion,
zinc IONS, dipeptidase; HET: NAG BIX; 1.29A {Homo
sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A*
2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3bi1_A* 2oot_A* 2pvv_A*
2pvw_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A* 3d7f_A* 3d7g_A*
3d7h_A* ...
Length = 707
Score = 29.5 bits (65), Expect = 3.5
Identities = 9/51 (17%), Positives = 14/51 (27%)
Query: 375 IHGDAAFAGQGIVSETFGLSGLSGYTVAGNIHLIINNQIGFTTNPSSARSC 425
GD + + F L G G I + +I +A
Sbjct: 127 PEGDLVYVNYARTEDFFKLEREMGINCTGKIVIARYGKIFRGNKVKNAMLA 177
>2vk9_A Alpha-toxin; glycosyltransferase; 2.85A {Clostridium novyi} SCOP:
c.68.1.22
Length = 551
Score = 29.5 bits (66), Expect = 3.9
Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 23/97 (23%)
Query: 516 VISKQELQSLANNWHKYLEAEYKE------------SESYCPEKL-------GLLHNGEN 556
+I++++L +A+ K E EY + E L+ N +
Sbjct: 2 LITREQLMKIASIPLKRKEPEYNLILDALENFNRDIEGTSVKEIYSKLSKLNELVDNYQT 61
Query: 557 ERKNSVSKEILKKIG----SSIIRLPKSFNTHKIVER 589
+ +S L+ S + L K+ T I +
Sbjct: 62 KYPSSGRNLALENFRDSLYSELRELIKNSRTSTIASK 98
>2ao3_A 29-kDa galactose-binding lectin; earthworm lumbricus terrestris,
hemagglutinin, R-type lectin, beta-trefoil fold, sugar
complex; HET: MGC; 1.80A {Lumbricus terrestris} PDB:
2d12_A* 2zqo_A* 2zqn_A* 2dry_A* 2drz_A* 2ds0_A*
Length = 130
Score = 29.5 bits (65), Expect = 3.9
Identities = 6/43 (13%), Positives = 13/43 (30%)
Query: 683 GYSLNNLNALTIWEAQFGDFANGAQVILDQFITAGEQKWLCTS 725
+ + + D GA + + QK++ S
Sbjct: 87 NTIAQLSDRDIVLDIIKSDKEAGAHICAWKQHGGPNQKFIIES 129
>1l1s_A Hypothetical protein MTH1491; structural genomics, PSI, protein
structure initiative; 2.30A
{Methanothermobacterthermautotrophicus} SCOP: c.114.1.1
Length = 113
Score = 28.6 bits (64), Expect = 6.7
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 439 IFHVNGDDPEAVIRVVRMAVSFRMKFHKSVVIDIVCY 475
+FH++ DD V+ ++ + M +SV I++V Y
Sbjct: 7 VFHIDEDDESRVLLLISNVRNL-MADLESVRIEVVAY 42
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.136 0.401
Gapped
Lambda K H
0.267 0.0452 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 8,336,335
Number of extensions: 399531
Number of successful extensions: 1246
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1226
Number of HSP's successfully gapped: 31
Length of query: 957
Length of database: 5,693,230
Length adjustment: 101
Effective length of query: 856
Effective length of database: 3,244,586
Effective search space: 2777365616
Effective search space used: 2777365616
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 (28.0 bits)