RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14128
(393 letters)
>3i9v_3 NADH-quinone oxidoreductase subunit 3; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_3* 2fug_3* 3iam_3* 3ias_3*
3m9s_3*
Length = 783
Score = 135 bits (342), Expect = 5e-35
Identities = 47/319 (14%), Positives = 91/319 (28%), Gaps = 60/319 (18%)
Query: 77 KKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKL 136
K PL+ ++ + A LAL + L +V + A E + +L L
Sbjct: 307 KTPLVRKEGRLVEATWEEAFLALKEGLKE--ARGEEVGLYLAHDATLEEGLLASELAKAL 364
Query: 137 GSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNARIRKG 196
+ L + T A+ + +AD L++G +P EAP+ + R+ +
Sbjct: 365 KTPHLDFQ-------GRTAAPASLFPPASLEDLLQADFALVLG-DPTEEAPILHLRLSEF 416
Query: 197 YLTNELDVAYIGPKVDLRYDYEHLGESADLIKQLASGSHAFSKKLAAAKKPLIVVGADML 256
+ Y +++ + +
Sbjct: 417 VRDLKPPHRYNHGTPFADL--------------------QIKERMPRRTDKMALFAPYRA 456
Query: 257 SRSDGAAVLALVQQLAAKVTCESDHLGESADLIKQLASGSHA------FSKKLAAAKKPL 310
AA E GE +++ L + AK P+
Sbjct: 457 PLMKWAA------------IHEVHRPGEEREILLALLGDKEGSEMVAKAKEAWEKAKNPV 504
Query: 311 IVVGADMLSRSDGAAVLALVQQLAAKVTCESDVPCDWKVLNILQKAASQVAALDIGYKPG 370
+++GA +L + A L+ + + + AA+ +G PG
Sbjct: 505 LILGAGVLQDTVAAERARLLAERK------------GAKVLAMTPAANARGLEAMGVLPG 552
Query: 371 TSAIREKPPKVLFLLGADE 389
P L+
Sbjct: 553 AKGASWDEPGALYAYYGFV 571
Score = 79.9 bits (197), Expect = 2e-16
Identities = 36/217 (16%), Positives = 69/217 (31%), Gaps = 47/217 (21%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRKGYL------------------------TNELDVA 37
+AD L++G +P EAP+ + R+ + +A
Sbjct: 391 LQADFALVLG-DPTEEAPILHLRLSEFVRDLKPPHRYNHGTPFADLQIKERMPRRTDKMA 449
Query: 38 YIGP------KVDLRYDYEHLGESADLIKQLASGSHP------FSKKLSAAKKPLIVVGA 85
P K ++ GE +++ L + AK P++++GA
Sbjct: 450 LFAPYRAPLMKWAAIHEVHRPGEEREILLALLGDKEGSEMVAKAKEAWEKAKNPVLILGA 509
Query: 86 DMLSRSDGAAVLA-LVQQLAAKVTCESDVAGVVGSLADAEAMVALKDLLNKLGSEDLYTE 144
+L + A L ++ AKV + A G +A ++ + LY
Sbjct: 510 GVLQDTVAAERARLLAERKGAKVLAMTPAANARG--LEAMGVLPGAKGASWDEPGALYAY 567
Query: 145 YAFPLEGAGTDLRAN-----YLLNNKIAGAEEADLIL 176
Y L+ +L + A ++L
Sbjct: 568 YG--FVPPEEALKGKRFVVMHLSHLHPLAERYAHVVL 602
>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 = 72.0 bits (176), Expect = 1e-13
Identities = 78/455 (17%), Positives = 136/455 (29%), Gaps = 156/455 (34%)
Query: 3 EADLILLIGTNPRFEAPLFNARIRKG----YL------TNELDVAYIGPKVDLR--YD-Y 49
A ++ + + + LF A + +G + Y +LR Y Y
Sbjct: 128 TARIMAKRPFDKKSNSALFRA-VGEGNAQLVAIFGGQGNTD---DYFE---ELRDLYQTY 180
Query: 50 EHL-----GESADLIKQLASGSHPFSKKLSAA-------KKPLIVVGADMLSRSDGAAV- 96
L SA+ + +L + K + + P D L +
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS---IPIS 237
Query: 97 ---LALVQQLAA-KVTCESD-----------------VAGVVGSLADAEAM--------- 126
+ ++Q LA VT + G+V ++A AE
Sbjct: 238 CPLIGVIQ-LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV 296
Query: 127 -VALKDLLNKLGSE--DLYTEYAFPLE--------GAGTDLRANYLLNNKIAGAEEADLI 175
A+ +L +G + Y + P G + +L+ I+ + +
Sbjct: 297 RKAIT-VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV---PSPMLS--ISNLTQEQVQ 350
Query: 176 LLIG-TNPRF------EAPLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIK 228
+ TN E L N L V+ GP L G + L K
Sbjct: 351 DYVNKTNSHLPAGKQVEISLVNGA-------KNLVVS--GPPQSLY------GLNLTLRK 395
Query: 229 QLASGSHAFSKKLAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTC--ESDHLGESA 286
A S+ + +K + L V S L ++
Sbjct: 396 AKAPSGLDQSRIPFSERKLKFSN-----------------RFLP--VASPFHSHLLVPAS 436
Query: 287 DLIKQ-LASGSHAFSKK-LAAAKKPLIVV-----GADMLSRS-DGAAVLALVQQLAAKVT 338
DLI + L + +F+ K + I V G+D+ R G+ +V +
Sbjct: 437 DLINKDLVKNNVSFNAKDIQ------IPVYDTFDGSDL--RVLSGSISERIVDCIIRL-- 486
Query: 339 CESDVPCDWKVLNILQKAASQVAALDIGYKPGTSA 373
P W+ Q A+ + LD G PG ++
Sbjct: 487 -----PVKWE--TTTQFKATHI--LDFG--PGGAS 510
Score = 42.0 bits (98), Expect = 3e-04
Identities = 38/239 (15%), Positives = 60/239 (25%), Gaps = 115/239 (48%)
Query: 2 EEAD----------LILLIGTNPRFEAPLFNA----RIRKGYLT---------------- 31
AD ++ ++ NP F RIR+ Y
Sbjct: 1647 NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI 1706
Query: 32 ----NELDVAYI--GPKVDLRY--------------DYE----------------H-LGE 54
NE +Y K L +E H LGE
Sbjct: 1707 FKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE 1766
Query: 55 -SADLIKQLAS--GSHPFSKKLSAAKKPLIV----------VGADMLSRSDGAAVLALVQ 101
+A LAS S + +V V D L RS+ ++A+
Sbjct: 1767 YAA-----LASLADVMSIE---SLVE---VVFYRGMTMQVAVPRDELGRSNYG-MIAINP 1814
Query: 102 QLAAKVTCESDVAGVVGSLA-----------------------DAEAMVALKDLLNKLG 137
A + + VV + D A+ + ++LN +
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIK 1873
Score = 35.4 bits (81), Expect = 0.036
Identities = 50/277 (18%), Positives = 91/277 (32%), Gaps = 83/277 (29%)
Query: 129 LKDLLNK--------LGSEDLYTEYAFPLEGAGTDLRANYL--LNNKIAGAE--EADLIL 176
L++ NK ++D E P E L +L +++ + ++ + D +L
Sbjct: 33 LQEQFNKILPEPTEGFAADD---EPTTPAE-----LVGKFLGYVSSLVEPSKVGQFDQVL 84
Query: 177 LIGTNPRFEAPLFNARIRKGYLTNELDV----AYIGPKVDLRYDYEHLGESADLIKQLAS 232
+ FE YL D+ A + + D L ++ +LIK
Sbjct: 85 NLCLT-EFE---------NCYLEGN-DIHALAAKLLQENDTT-----LVKTKELIK---- 124
Query: 233 GSHAFSKKLAAAKKPLIVVGADMLSRS--DGAAVLALV---QQLAAKVTCESDHLGESAD 287
+ AK+P L R+ +G A L + Q G + D
Sbjct: 125 ---NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ-------------GNTDD 168
Query: 288 LIKQLASGSHAFSKKLAAAKKPLIVVGADML---SRSDGAA------VLALVQQLAAKVT 338
++L + LI A+ L R+ A L +++ L
Sbjct: 169 YFEELRDLYQTY----HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 339 CESD-----VPCDWKVLNILQKAASQVAALDIGYKPG 370
+P ++ ++Q A V A +G+ PG
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
>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 = 40.2 bits (93), Expect = 0.001
Identities = 35/181 (19%), Positives = 62/181 (34%), Gaps = 40/181 (22%)
Query: 5 DLILLIGTNPRFEAPLFNARIRKGY-LTNELDVAYIGPKVDLRYDYEHLG---ESADLIK 60
+ L + E L + I Y + D + P +Y Y H+G ++ + +
Sbjct: 430 SIYLELKVKLENEYAL-HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488
Query: 61 QLASGSHPF------SKKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLA--AKVTCESD 112
++ F +K+ G ++L +QQL C++D
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASG----------SILNTLQQLKFYKPYICDND 538
Query: 113 VAGVVGSLADAEAMV-ALKDLLNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEE 171
E +V A+ D L K+ + ++Y TDL L+ A EE
Sbjct: 539 --------PKYERLVNAILDFLPKIEENLICSKY--------TDLLRIALMAEDEAIFEE 582
Query: 172 A 172
A
Sbjct: 583 A 583
Score = 39.8 bits (92), Expect = 0.001
Identities = 61/419 (14%), Positives = 122/419 (29%), Gaps = 155/419 (36%)
Query: 13 NPR-FEAPLFNARI----RKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIKQLASGSH 67
N + + A + +I R +T+ L A + D+ + + D +K L
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAAT---TTHISLDHHSMTLTPDEVKSL----- 306
Query: 68 PFSKKLS--------AAKK--PLIV--VGA---DMLSRSDG--------------AAVLA 98
K L P + + D L+ D +++
Sbjct: 307 -LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 99 LV--------QQLA---------AKVTC-------ESDVAGVVGSLADAEAMVALKDLLN 134
L +L+ + +SDV VV L L+
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK-------YSLVE 418
Query: 135 KLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNPRFEAPLFNA-RI 193
K E + + L K+ E L + + I
Sbjct: 419 KQPKESTISIP---------SI----YLELKVKLENEYAL----------HRSIVDHYNI 455
Query: 194 RKGYLTNELDVAYIGPKVDLRYDYEHLG---ESADLIKQLASGSHAF------SKKLAAA 244
K + +++L I P +D +Y Y H+G ++ + +++ F +K+
Sbjct: 456 PKTFDSDDL----IPPYLD-QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510
Query: 245 KKPLIVVGADMLSRSDGAAVLALVQQLA--AKVTCESDHLGESADLIKQLASGSHAFSKK 302
G ++L +QQL C++D + +
Sbjct: 511 STAWNASG----------SILNTLQQLKFYKPYICDND----------------PKYERL 544
Query: 303 LAAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVPCDWKVLNILQKAASQVA 361
+ A L + +++ S +L ++A + E + I ++A QV
Sbjct: 545 VNAILDFLPKIEENLI-CSKYTDLL----RIA--LMAEDEA--------IFEEAHKQVQ 588
>2iv2_X Formate dehydrogenase H; oxidoreductase, 4Fe-4S, anaerobic,
complete proteome, direct protein sequencing, Fe4S4,
iron, iron sulfur cluster; HET: 2MD MGD; 2.27A
{Escherichia coli} SCOP: b.52.2.2 c.81.1.1 PDB: 1fdi_A*
1fdo_A* 1aa6_A*
Length = 715
Score = 31.8 bits (73), Expect = 0.38
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 164 NKIAGAEEADLILLIGTNPRFEAPLFNARIRK 195
N I + DL+ + G NP P+ +
Sbjct: 159 NAINEIDNTDLVFVFGYNPADSHPIVANHVIN 190
Score = 31.0 bits (71), Expect = 0.78
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 2 EEADLILLIGTNPRFEAPLFNARIRK 27
+ DL+ + G NP P+ +
Sbjct: 165 DNTDLVFVFGYNPADSHPIVANHVIN 190
>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 = 30.7 bits (68), Expect = 0.51
Identities = 14/40 (35%), Positives = 16/40 (40%), Gaps = 15/40 (37%)
Query: 71 KKLSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCE 110
KKL A+ K AD D A LA+ K T E
Sbjct: 23 KKLQASLKLY----AD-----DSAPALAI------KATME 47
Score = 28.4 bits (62), Expect = 2.8
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 227 IKQLASGSHAFSKKL-AAAKKPLIVVGADM 255
+K+L + S KL A P + + A M
Sbjct: 22 LKKLQA-----SLKLYADDSAPALAIKATM 46
Score = 28.4 bits (62), Expect = 2.8
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 289 IKQLASGSHAFSKKL-AAAKKPLIVVGADM 317
+K+L + S KL A P + + A M
Sbjct: 22 LKKLQA-----SLKLYADDSAPALAIKATM 46
>1kqf_A FDH-N alpha, formate dehydrogenase, nitrate-inducible, major S;
oxidoreductase, selenium, selenocysteine, seCys,
molybdenum; HET: MGD HEM CDL; 1.60A {Escherichia coli}
SCOP: b.52.2.2 c.81.1.1 PDB: 1kqg_A*
Length = 1015
Score = 31.4 bits (71), Expect = 0.61
Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 8/72 (11%)
Query: 164 NKIAGAEEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGE 222
N + A++++++G N EA P+ + N+ + + P+ +
Sbjct: 215 NHWVDIKNANVVMVMGGNA-AEAHPVGFRWAMEAKNNNDATLIVVDPR------FTRTAS 267
Query: 223 SADLIKQLASGS 234
AD+ + SG+
Sbjct: 268 VADIYAPIRSGT 279
Score = 31.0 bits (70), Expect = 0.82
Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 2 EEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPKVDLRYDYEHLGESADLIK 60
+ A++++++G N EA P+ + N+ + + P+ + AD+
Sbjct: 221 KNANVVMVMGGNA-AEAHPVGFRWAMEAKNNNDATLIVVDPR------FTRTASVADIYA 273
Query: 61 QLASGS 66
+ SG+
Sbjct: 274 PIRSGT 279
>1g8k_A Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske,
oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis}
SCOP: b.52.2.2 c.81.1.1 PDB: 1g8j_A*
Length = 825
Score = 30.4 bits (69), Expect = 1.2
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 162 LNNKIAGAEEADLILLIGTNP 182
LNN A+ AD+I IG NP
Sbjct: 215 LNNAYEDAQLADVIWSIGNNP 235
Score = 28.9 bits (65), Expect = 3.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 1 AEEADLILLIGTNP 14
A+ AD+I IG NP
Sbjct: 222 AQLADVIWSIGNNP 235
>3ml1_A NAPA, periplasmic nitrate reductase; heterodimer, oxidoreductase;
HET: MGD HEC; 1.60A {Ralstonia eutropha} PDB: 3o5a_A*
1ogy_A* 2nya_A*
Length = 802
Score = 30.4 bits (69), Expect = 1.3
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 13/69 (18%)
Query: 2 EEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPK---VDLRYDYEHLGESAD 57
E AD +L G+N E P+ R+ L++ + + + AD
Sbjct: 177 EAADAFVLWGSNM-AEMHPILWTRVTDRRLSHP------KTRVVVLSTFTH--RCFDLAD 227
Query: 58 LIKQLASGS 66
+ +
Sbjct: 228 IGIIFKPQT 236
Score = 30.4 bits (69), Expect = 1.3
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 13/69 (18%)
Query: 170 EEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPK---VDLRYDYEHLGESAD 225
E AD +L G+N E P+ R+ L++ + + + AD
Sbjct: 177 EAADAFVLWGSNM-AEMHPILWTRVTDRRLSHP------KTRVVVLSTFTH--RCFDLAD 227
Query: 226 LIKQLASGS 234
+ +
Sbjct: 228 IGIIFKPQT 236
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 29.9 bits (68), Expect = 1.4
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 112 DVAGVVGSLADAEAMVALKDLLNKLGSEDLYT 143
D+ G ADAE + +L++LG +D+Y
Sbjct: 128 DIFGSDSPEADAEVIALASSILDRLGLQDIYE 159
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 29.5 bits (66), Expect = 1.8
Identities = 8/51 (15%), Positives = 17/51 (33%), Gaps = 10/51 (19%)
Query: 109 CESDVAGVVGSLADAEAMVALKDLLNKLGSEDL--------YTEYAFPLEG 151
G + + E++ + D LN LG + + + + G
Sbjct: 181 LVFWQMGSGCTRENLESI--ITDFLNHLGIDFKIVGDSCMVFGDTLDVMHG 229
>1h0h_A Formate dehydrogenase (large subunit); tungsten selenium formate
dehydrogenase, selenocysteine, molybdopterin, MGD,
iron-sulphur cluster; HET: 2MD MGD EPE; 1.8A
{Desulfovibrio gigas} SCOP: b.52.2.2 c.81.1.1
Length = 977
Score = 29.5 bits (66), Expect = 2.4
Identities = 20/76 (26%), Positives = 29/76 (38%), Gaps = 15/76 (19%)
Query: 164 NKIAGAEEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPK---VDLRYDYEH 219
N + +D+IL++G+NP E P+ + + G VD RY
Sbjct: 177 NHWIDLKNSDVILMMGSNP-AENHPISFKWVMRAKDK--------GATLIHVDPRYT--R 225
Query: 220 LGESADLIKQLASGSH 235
DL L SGS
Sbjct: 226 TSTKCDLYAPLRSGSD 241
Score = 28.0 bits (62), Expect = 6.6
Identities = 19/70 (27%), Positives = 28/70 (40%), Gaps = 15/70 (21%)
Query: 2 EEADLILLIGTNPRFEA-PLFNARIRKGYLTNELDVAYIGPK---VDLRYDYEHLGESAD 57
+ +D+IL++G+NP E P+ + + G VD RY D
Sbjct: 183 KNSDVILMMGSNP-AENHPISFKWVMRAKDK--------GATLIHVDPRYT--RTSTKCD 231
Query: 58 LIKQLASGSH 67
L L SGS
Sbjct: 232 LYAPLRSGSD 241
>1t9b_A Acetolactate synthase, mitochondrial; acetohydroxyacid synthase,
herbicide, sulfonylurea, thiamin diphosphate, FAD,
inhibitor; HET: 1CS P25 FAD NSP P22 YF3; 2.20A
{Saccharomyces cerevisiae} SCOP: c.31.1.3 c.36.1.5
c.36.1.9 PDB: 1n0h_A* 1t9a_A* 1t9c_A* 1t9d_A* 1jsc_A*
Length = 677
Score = 29.5 bits (67), Expect = 2.4
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 241 LAAAKKPLIVVGADMLSRSDGAAVL-ALVQQLAAKVT 276
+ AKKP++ VGA +L+ +DG +L L + VT
Sbjct: 286 INLAKKPVLYVGAGILNHADGPRLLKELSDRAQIPVT 322
Score = 29.5 bits (67), Expect = 2.4
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 303 LAAAKKPLIVVGADMLSRSDGAAVL-ALVQQLAAKVT 338
+ AKKP++ VGA +L+ +DG +L L + VT
Sbjct: 286 INLAKKPVLYVGAGILNHADGPRLLKELSDRAQIPVT 322
Score = 28.8 bits (65), Expect = 3.4
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 73 LSAAKKPLIVVGADMLSRSDGAAVL-ALVQQLAAKVT 108
++ AKKP++ VGA +L+ +DG +L L + VT
Sbjct: 286 INLAKKPVLYVGAGILNHADGPRLLKELSDRAQIPVT 322
>2wvg_A PDC, pyruvate decarboxylase; thiamine diphosphate, lyase,
flavoprotein, metal-binding, alcohol fermentation; HET:
TPU; 1.75A {Zymomonas mobilis} PDB: 2wva_A* 2wvh_A
3oe1_A* 1zpd_A*
Length = 568
Score = 29.1 bits (66), Expect = 2.9
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 239 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 277
K +A K ++VG+ L + A + L V
Sbjct: 204 KFIANRDKVAVLVGS-KLRAAGAEEAAVKFADALGGAVAT 242
Score = 29.1 bits (66), Expect = 2.9
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 301 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 339
K +A K ++VG+ L + A + L V
Sbjct: 204 KFIANRDKVAVLVGS-KLRAAGAEEAAVKFADALGGAVAT 242
Score = 28.7 bits (65), Expect = 4.0
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 71 KKLSAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 109
K ++ K ++VG+ L + A + L V
Sbjct: 204 KFIANRDKVAVLVGS-KLRAAGAEEAAVKFADALGGAVAT 242
>2vbi_A Pyruvate decarboxylase; thiamine pyrophosphate, lyase, pyruv
flavoprotein, THDP-dependent enzyme; HET: TPP; 2.75A
{Acetobacter pasteurianus}
Length = 566
Score = 28.7 bits (65), Expect = 3.7
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 239 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 277
L + P++++G+ L ++ AA L +L VT
Sbjct: 204 ALLEKSASPVMLLGS-KLRAANALAATETLADKLQCAVTI 242
Score = 28.7 bits (65), Expect = 3.7
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 301 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 339
L + P++++G+ L ++ AA L +L VT
Sbjct: 204 ALLEKSASPVMLLGS-KLRAANALAATETLADKLQCAVTI 242
Score = 28.3 bits (64), Expect = 4.8
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 71 KKLSAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 109
L + P++++G+ L ++ AA L +L VT
Sbjct: 204 ALLEKSASPVMLLGS-KLRAANALAATETLADKLQCAVTI 242
>2vbf_A Branched-chain alpha-ketoacid decarboxylase; KDCA, flavoprotein,
THDP-dependent enzymes, thiamine pyrophosphate, lyase;
HET: TPP; 1.60A {Lactococcus lactis} PDB: 2vbg_A*
Length = 570
Score = 28.7 bits (65), Expect = 3.9
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 239 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVT 276
+ L A+KP+++ G + V V + +T
Sbjct: 223 ESLKNAQKPVVIAGH-EVISFGLEKTVTQFVSETKLPIT 260
Score = 28.7 bits (65), Expect = 3.9
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 301 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVT 338
+ L A+KP+++ G + V V + +T
Sbjct: 223 ESLKNAQKPVVIAGH-EVISFGLEKTVTQFVSETKLPIT 260
Score = 28.3 bits (64), Expect = 4.9
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 71 KKLSAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVT 108
+ L A+KP+++ G + V V + +T
Sbjct: 223 ESLKNAQKPVVIAGH-EVISFGLEKTVTQFVSETKLPIT 260
>3lc0_A Histidyl-tRNA synthetase; tRNA-ligase, aminoacyl-tRNA synthetase,
ligase, structural G medical structural genomics of
pathogenic protozoa; HET: HIS; 1.80A {Trypanosoma cruzi}
PDB: 3hrk_A* 3hri_A
Length = 456
Score = 28.4 bits (64), Expect = 4.0
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 109 CESDVAGVVGSLADAEAMVALKDLLNKLG 137
D+ GV A+ E + A + LG
Sbjct: 149 WNMDIVGVKSVSAEVELVCAACWAMRSLG 177
>2vk8_A Pyruvate decarboxylase isozyme 1; asymmetric active sites,
phenylalanine catabolism, tryptophan catabolism,
thiamine pyrophosphate; HET: TPP; 1.42A {Saccharomyces
cerevisiae} PDB: 1qpb_A* 2vk1_A* 2w93_A* 1pyd_A* 1pvd_A*
2vk4_A* 2vjy_A* 2g1i_A*
Length = 563
Score = 28.3 bits (64), Expect = 4.5
Identities = 10/40 (25%), Positives = 13/40 (32%), Gaps = 2/40 (5%)
Query: 239 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 277
AK P+I+ A SR D A L+
Sbjct: 206 VLDKDAKNPVILADA-CCSRHDVKAETKKLIDLTQFPAFV 244
Score = 28.3 bits (64), Expect = 4.5
Identities = 10/40 (25%), Positives = 13/40 (32%), Gaps = 2/40 (5%)
Query: 301 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 339
AK P+I+ A SR D A L+
Sbjct: 206 VLDKDAKNPVILADA-CCSRHDVKAETKKLIDLTQFPAFV 244
Score = 28.3 bits (64), Expect = 5.7
Identities = 10/40 (25%), Positives = 13/40 (32%), Gaps = 2/40 (5%)
Query: 71 KKLSAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 109
AK P+I+ A SR D A L+
Sbjct: 206 VLDKDAKNPVILADA-CCSRHDVKAETKKLIDLTQFPAFV 244
>1ovm_A Indole-3-pyruvate decarboxylase; thiamine diphosphate,
indole-3-acetic acid, TDP dependent enzyme, lyase; HET:
TPP; 2.65A {Enterobacter cloacae} SCOP: c.31.1.3
c.36.1.5 c.36.1.9
Length = 552
Score = 28.3 bits (64), Expect = 4.8
Identities = 7/40 (17%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 239 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 277
KLA +K+ ++ ++ R A+ V+++
Sbjct: 204 NKLAMSKRTALLADF-LVLRHGLKHALQKWVKEVPMAHAT 242
Score = 28.3 bits (64), Expect = 4.8
Identities = 7/40 (17%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 301 KKLAAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 339
KLA +K+ ++ ++ R A+ V+++
Sbjct: 204 NKLAMSKRTALLADF-LVLRHGLKHALQKWVKEVPMAHAT 242
Score = 27.9 bits (63), Expect = 6.2
Identities = 6/40 (15%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 71 KKLSAAKKPLIVVGADMLSRSD-GAAVLALVQQLAAKVTC 109
KL+ +K+ ++ ++ R A+ V+++
Sbjct: 204 NKLAMSKRTALLADF-LVLRHGLKHALQKWVKEVPMAHAT 242
>2e7z_A Acetylene hydratase AHY; tungstoprotein, DMSO reductase family,
iron-sulfur-cluster, lyase; HET: MGD; 1.26A {Pelobacter
acetylenicus}
Length = 727
Score = 28.4 bits (64), Expect = 4.8
Identities = 6/32 (18%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 2 EEADLILLIGTNPR-----FEAPLFNARIRKG 28
+++ +L IG N + A +++G
Sbjct: 159 ADSNCLLFIGKNLSNHNWVSQFNDLKAALKRG 190
Score = 28.4 bits (64), Expect = 4.8
Identities = 6/32 (18%), Positives = 14/32 (43%), Gaps = 5/32 (15%)
Query: 170 EEADLILLIGTNPR-----FEAPLFNARIRKG 196
+++ +L IG N + A +++G
Sbjct: 159 ADSNCLLFIGKNLSNHNWVSQFNDLKAALKRG 190
>2nap_A Protein (periplasmic nitrate reductase); nitrogenous acceptor,
dissimilatory nitrate reductase; HET: MGD MES; 1.90A
{Desulfovibrio desulfuricans} SCOP: b.52.2.2 c.81.1.1
PDB: 2jim_A* 2jir_A* 2jip_A* 2v45_A* 2v3v_A* 2jiq_A*
2jio_A*
Length = 723
Score = 28.3 bits (64), Expect = 5.0
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 2 EEADLILLIGTNPRFEA-PLFNARIRK 27
++A +IG+N EA P+ RI +
Sbjct: 165 DQATCFFIIGSNT-SEAHPVLFRRIAR 190
Score = 28.3 bits (64), Expect = 5.0
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 170 EEADLILLIGTNPRFEA-PLFNARIRK 195
++A +IG+N EA P+ RI +
Sbjct: 165 DQATCFFIIGSNT-SEAHPVLFRRIAR 190
>2vpz_A Thiosulfate reductase; oxidoreductase, molybdopterin guanine
dinucleotide, iron-sulfur, metal-binding, molybdopterin;
HET: MGD; 2.40A {Thermus thermophilus} PDB: 2vpx_A*
2vpw_A* 2vpy_A*
Length = 765
Score = 28.0 bits (63), Expect = 5.8
Identities = 7/28 (25%), Positives = 9/28 (32%), Gaps = 3/28 (10%)
Query: 2 EEADLILLIGTNPRFEA--PLFNARIRK 27
E A I+LIG + E
Sbjct: 198 ENARYIVLIGHHI-GEDTHNTQLQDFAL 224
Score = 28.0 bits (63), Expect = 5.8
Identities = 7/28 (25%), Positives = 9/28 (32%), Gaps = 3/28 (10%)
Query: 170 EEADLILLIGTNPRFEA--PLFNARIRK 195
E A I+LIG + E
Sbjct: 198 ENARYIVLIGHHI-GEDTHNTQLQDFAL 224
>3cf4_G Acetyl-COA decarboxylase/synthase epsilon subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 170
Score = 27.0 bits (59), Expect = 7.7
Identities = 17/110 (15%), Positives = 30/110 (27%), Gaps = 22/110 (20%)
Query: 73 LSAAKKPLIVVGADMLSRSDGAAVLALVQQLAAKVTCESDVAGVVGSLADAEAMVALKDL 132
+S AK+PL++VG L V+ + + + V+ + L
Sbjct: 31 ISKAKRPLLMVGTLALDPELLDRVVKISKAANIPIAATGSSLAVLADKDVDAKYINAHML 90
Query: 133 LNKLGSEDLYTEYAFPLEGAGTDLRANYLLNNKIAGAEEADLILLIGTNP 182
L + G D+I+ IG
Sbjct: 91 GFYLTDPK----------------------WPGLDGNGNYDMIITIGFKK 118
>2vxg_A LD41624, GE-1, CG6181-PA, isoform A; decapping, EDC4, hedls, mRNA
decay, P-BODY, gene regulation; 1.9A {Drosophila
melanogaster}
Length = 139
Score = 26.5 bits (58), Expect = 9.5
Identities = 28/116 (24%), Positives = 44/116 (37%), Gaps = 31/116 (26%)
Query: 283 GESADLIKQLASGSH---AFSKKLAAAKKPLIVVGADMLSRSDGAAV------------- 326
G D IKQL AF + L A L+ L +D
Sbjct: 1 GAMGDSIKQLLMAGQINKAFHQALLANDLGLVE---FTLRHTDSNQAFAPEGCRLEQKVL 57
Query: 327 LALVQQLAAKVTCESDVPCDWKVLNILQKAASQVAALDIGYKPGTSAIREKPPKVL 382
L+L+QQ++A +T +++ + L +A A+++ RE PKVL
Sbjct: 58 LSLIQQISADMTNHNELKQRY-----LNEAL---LAINMADP----ITREHAPKVL 101
>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 = 27.5 bits (61), Expect = 9.7
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 123 AEAMVALKDLLNKLGSED--LYTEYAFPLEG--AGTDLRANYLLNNKIAGAEEA 172
+E+ ++L+ L N+ SE + G GT L + NN IA E
Sbjct: 641 SESKLSLETLFNRWHSESWANQLTVCGAIIGWTRGTGLMSA---NNIIAEGIEK 691
>1q6z_A BFD, BFDC, benzoylformate decarboxylase; lyase, carbon-carbon,
mandelate catabolism, T thiazolone diphosphate,
inhibitor, high resolution; HET: TZD; 1.00A {Pseudomonas
putida} SCOP: c.31.1.3 c.36.1.5 c.36.1.9 PDB: 1po7_A*
1pi3_A* 3fsj_X* 1mcz_A* 1bfd_A* 2fwn_A* 3fzn_A* 2fn3_A*
2v3w_A* 1yno_A* 3f6b_X* 3f6e_X*
Length = 528
Score = 27.5 bits (62), Expect = 9.9
Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 9/76 (11%)
Query: 203 DVAYIGPKVDLRYDYEHLGE-SADLIKQLASGSHAFSKKLAAAKKPLIVVGADMLSRSDG 261
D + R + + L K L +A P IV+G D+ + +
Sbjct: 166 DADPQSHHLFDR-HVSSSVRLNDQDLDILV-------KALNSASNPAIVLGPDVDAANAN 217
Query: 262 AAVLALVQQLAAKVTC 277
A + L ++L A V
Sbjct: 218 ADCVMLAERLKAPVWV 233
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
0.316 0.133 0.368
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,993,759
Number of extensions: 382619
Number of successful extensions: 1257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1246
Number of HSP's successfully gapped: 76
Length of query: 393
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 297
Effective length of database: 4,021,377
Effective search space: 1194348969
Effective search space used: 1194348969
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.1 bits)