RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14417
(120 letters)
>2c31_A Oxalyl-COA decarboxylase; oxalate, thiamin diphosphate,
flavoprotein, lyase, thiamine pyrophosphate; HET: TZD
ADP; 1.73A {Oxalobacter formigenes} SCOP: c.31.1.3
c.36.1.5 c.36.1.9 PDB: 2ji6_A* 2ji7_A* 2ji8_A* 2ji9_A*
2jib_A*
Length = 568
Score = 107 bits (271), Expect = 7e-29
Identities = 36/117 (30%), Positives = 61/117 (52%), Gaps = 6/117 (5%)
Query: 1 MGKGVVPDAHPNCVSAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNV-KIIQVDLN 59
M KG++PD HP +A R AL D+ +L+GARLNW++ G+ + + K +Q+D+
Sbjct: 249 MAKGLLPDNHPQSAAATRAFALAQCDVCVLIGARLNWLMQHGKGKTWGDELKKYVQIDIQ 308
Query: 60 AEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELKLKCQTNRQ 116
A E+ ++ A + D++ V L++ L + A + W LK K N+
Sbjct: 309 ANEMDSNQPIAAPVVGDIKSAVSLLRKALKGAPK-----ADAEWTGALKAKVDGNKA 360
>2q28_A Oxalyl-COA decarboxylase; lyase, oxalate degradation, thiami
diphosphate, lyase; HET: TPP ADP MES; 1.74A {Escherichia
coli} PDB: 2q27_A* 2q29_A*
Length = 564
Score = 91.1 bits (227), Expect = 8e-23
Identities = 35/108 (32%), Positives = 61/108 (56%), Gaps = 5/108 (4%)
Query: 1 MGKGVVPDAHPNCVSAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNVKIIQVDLNA 60
M KG++ D HP +AAR+ AL NAD+V+L+GARLNW+L + ++ + IQ+D+
Sbjct: 247 MAKGILEDTHPLSAAAARSFALANADVVMLVGARLNWLLA-HGKKGWAADTQFIQLDIEP 305
Query: 61 EELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
+E+ ++ AV + D+ ++Q + L + +F+ W L
Sbjct: 306 QEIDSNRPIAVPVVGDIASSMQGMLAEL----KQNTFTTPLVWRDILN 349
>4feg_A Pyruvate oxidase; carbanion, structure activity relationship,
oxidation-reduct umpolung, thiamine diphosphate,
reaction intermediate; HET: TDM FAD GOL; 1.09A
{Lactobacillus plantarum} PDB: 4fee_A* 1y9d_A* 2ez9_A*
2ez4_A* 2ez8_A* 2ezt_A* 2ezu_A* 1pow_A* 1pox_A*
Length = 603
Score = 72.2 bits (178), Expect = 3e-16
Identities = 25/120 (20%), Positives = 46/120 (38%), Gaps = 23/120 (19%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRFK 48
KG+V D +P + AL AD+VL +G + +A FK
Sbjct: 246 PAKGIVADRYPAYLGSANRVAQKPANEALAQADVVLFVGNN------YPFAEVSKA--FK 297
Query: 49 SNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
+ +Q+D++ +L + +A+ +D + T L +L+ S +K
Sbjct: 298 NTRYFLQIDIDPAKLGKRHKTDIAVLADAQKT---LAAILAQVSERESTPWWQANLANVK 354
>1ybh_A Acetolactate synthase, chloroplast; acetohydroxyacid synthase,
herbicide, sulfonylurea, thiamin diphosphate, FAD,
inhibitor; HET: CIE NHE FAD P22; 2.50A {Arabidopsis
thaliana} SCOP: c.31.1.3 c.36.1.5 c.36.1.9 PDB: 1yhy_A*
1yhz_A* 1yi0_A* 1yi1_A* 1z8n_A* 3ea4_A* 3e9y_A*
Length = 590
Score = 71.8 bits (177), Expect = 4e-16
Identities = 27/120 (22%), Positives = 51/120 (42%), Gaps = 19/120 (15%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRFK 48
MG G P + + +A++++DL+L G R F G+ F
Sbjct: 248 MGLGSYPADDELSLHMLGMHGTVYANYAVEHSDLLLAFGVR------FDDRVTGKLEAFA 301
Query: 49 SNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
S KI+ +D+++ E+ + V++ DV+L +Q + ++L + W EL
Sbjct: 302 SRAKIVHIDIDSAEIGKNKTPHVSVCGDVKLALQGMNKVLENRAEELK-LDFGVWRNELN 360
>3eya_A Pyruvate dehydrogenase [cytochrome]; pyruvate oxidase,
membrane-associated flavoprotein dehydrogenase,
interactions with lipids cell membrane; HET: TDP FAD;
2.50A {Escherichia coli} PDB: 3ey9_A*
Length = 549
Score = 71.8 bits (177), Expect = 5e-16
Identities = 23/115 (20%), Positives = 47/115 (40%), Gaps = 16/115 (13%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNVKI 53
GK V +P V ++ H + NAD ++LLG + + + + KI
Sbjct: 235 RGKEHVEYDNPYDVGMTGLIGFSSGFHTMMNADTLVLLGTQFPYRAFY--PT----DAKI 288
Query: 54 IQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
IQ+D+N + + +A+ D++ T L+ +L + ++ +
Sbjct: 289 IQIDINPASIGAHSKVDMALVGDIKST---LRALLPLVEEKADRKFLDKALEDYR 340
>1v5e_A Pyruvate oxidase; oxidoreductase, flavoprotein; HET: FAD; 1.60A
{Aerococcus viridans} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 2dji_A* 1v5f_A* 1v5g_A*
Length = 590
Score = 71.5 bits (176), Expect = 6e-16
Identities = 18/116 (15%), Positives = 33/116 (28%), Gaps = 15/116 (12%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHFGR-APRFKSNVK 52
+ AD VL G+ F F++
Sbjct: 239 KNFETFEWDFEALTGSTYRVGWKPANETILEADTVLFAGSNFP----FSEVEGTFRNVDN 294
Query: 53 IIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
IQ+D++ L A VAI D L + ++L+ + + + +
Sbjct: 295 FIQIDIDPAMLGKRHHADVAILGDAALA---IDEILNKVDAVEESAWWTANLKNIA 347
>2pan_A Glyoxylate carboligase; thiamin-diphosphate (THDP),
thimain-dependent enzymes, FAD, lyase; HET: FAD TDP 1PE;
2.70A {Escherichia coli}
Length = 616
Score = 69.2 bits (170), Expect = 3e-15
Identities = 22/121 (18%), Positives = 42/121 (34%), Gaps = 19/121 (15%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRF 47
MG G +PD H L +D+V +G R F G ++
Sbjct: 262 MGWGCIPDDHELMAGMVGLQTAHRYGNATLLASDMVFGIGNR------FANRHTGSVEKY 315
Query: 48 KSNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQEL 107
KI+ +D+ ++ + + I SD + + L ++ Q+ W +
Sbjct: 316 TEGRKIVHIDIEPTQIGRVLCPDLGIVSDAKAALTLLVEVAQEMQKAGRLPCRKEWVADC 375
Query: 108 K 108
+
Sbjct: 376 Q 376
>2uz1_A Benzaldehyde lyase; thiamine diphosphate, thiamine pyrophosphate,
benzoin, flavoprotein; HET: TPP; 1.65A {Pseudomonas
fluorescens} PDB: 2ag1_A* 2ag0_A* 2uz1_B* 3iae_A*
3iaf_A* 3d7k_A*
Length = 563
Score = 69.1 bits (170), Expect = 4e-15
Identities = 25/120 (20%), Positives = 46/120 (38%), Gaps = 21/120 (17%)
Query: 1 MGKGVVPDAHPNCV------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRF-K 48
G ++ + A DLVL+LGAR F + +
Sbjct: 240 EGLSMLSGLPDAMRGGLVQNLYSFAKADAAPDLVLMLGAR------FGLNTGHGSGQLIP 293
Query: 49 SNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
+ ++IQVD +A EL A+ I +DV T ++ + T ++ ++ W ++
Sbjct: 294 HSAQVIQVDPDACELGRLQGIALGIVADVGGT---IEALAQATAQDAAWPDRGDWCAKVT 350
>2iht_A Carboxyethylarginine synthase; thiamin diphosphate complex,
transferase; HET: MSE TPP; 2.00A {Streptomyces
clavuligerus} SCOP: c.31.1.3 c.36.1.5 c.36.1.9 PDB:
1upb_A* 1upc_A* 1upa_A* 2ihu_A* 2ihv_A*
Length = 573
Score = 67.2 bits (165), Expect = 2e-14
Identities = 17/125 (13%), Positives = 33/125 (26%), Gaps = 24/125 (19%)
Query: 1 MGKGVVPDAHPNCVSAART-----H-------ALQNADLVLLLGARLNWMLHF-----GR 43
+ KGV+P H A DLVL +G +
Sbjct: 252 IAKGVLPVGHELNYGAVTGYMDGILNFPALQTMFAPVDLVLTVGYD------YAEDLRPS 305
Query: 44 APRFKSNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPW 103
+ K +++ + + V + +DV V+ + + P
Sbjct: 306 MWQKGIEKKTVRISPTVNPIPRVYRPDVDVVTDVLAFVEHFETATASFGAKQR-HDIEPL 364
Query: 104 WQELK 108
+
Sbjct: 365 RARIA 369
>2pgn_A Cyclohexane-1,2-dione hydrolase (CDH); three alpha/beta domains;
HET: P6G FAD TPP; 1.20A {Azoarcus SP} PDB: 2pgo_A*
Length = 589
Score = 66.0 bits (162), Expect = 4e-14
Identities = 21/121 (17%), Positives = 42/121 (34%), Gaps = 20/121 (16%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRFK 48
G GV P+ H + + + AD VL+LG+R +
Sbjct: 241 TGAGVFPETHALAMGSAGFCGWKSANDMMAAADFVLVLGSR------LSDWGIAQG-YIT 293
Query: 49 SNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQ-RNWSFSATSPWWQEL 107
K + VD + L +++ +D + ++QL ++L T +++
Sbjct: 294 KMPKFVHVDTDPAVLGTFYFPLLSVVADAKTFMEQLIEVLPGTSGFKAVRYQERENFRQA 353
Query: 108 K 108
Sbjct: 354 T 354
>2nxw_A Phenyl-3-pyruvate decarboxylase; thiamine pyrophosphate, asymmetric
dimer of dimers, open ACT loops, lyase; HET: TPP; 1.50A
{Azospirillum brasilense} PDB: 2q5j_A* 2q5l_A* 2q5o_A*
2q5q_A*
Length = 565
Score = 65.7 bits (161), Expect = 6e-14
Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 9/103 (8%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNVK 52
MG+G++ DA + A T ++ +D + LLGA L+ F + R K
Sbjct: 258 MGRGLLADAPTPPLGTYIGVAGDAEITRLVEESDGLFLLGAILSDTN-FAVSQRKIDLRK 316
Query: 53 IIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNW 95
I A L A + + V +++L T+
Sbjct: 317 TIHAFDRAVTLGYHTYADIPLAGLVDALLERLPPSDRTTRGKE 359
>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 = 58.0 bits (141), Expect = 2e-11
Identities = 24/129 (18%), Positives = 48/129 (37%), Gaps = 33/129 (25%)
Query: 1 MGKGVVPDAHPNCV-------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRFK 48
G G P + A A+QNADL++ +GAR F G +F
Sbjct: 326 QGLGSFDQEDPKSLDMLGMHGCATANLAVQNADLIIAVGAR------FDDRVTGNISKFA 379
Query: 49 SNVK---------IIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSA 99
+ II +++ + ++ VQ +A++ D + ++ + +
Sbjct: 380 PEARRAAAEGRGGIIHFEVSPKNINKVVQTQIAVEGDATTNLGKMMSKIFPVK------E 433
Query: 100 TSPWWQELK 108
S W+ ++
Sbjct: 434 RSEWFAQIN 442
>1ozh_A ALS, acetolactate synthase, catabolic; acetohydroxyacid synthase,
thiamin diphosphate, lyase; HET: PGE HE3; 2.00A
{Klebsiella pneumoniae} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 1ozg_A* 1ozf_A*
Length = 566
Score = 57.5 bits (140), Expect = 4e-11
Identities = 19/119 (15%), Positives = 37/119 (31%), Gaps = 19/119 (15%)
Query: 1 MGKGVVPDAH-PNCV-------SAARTHALQNADLVLLLGARLNWMLHFG-RAP--RFKS 49
G V + + A LQ ADLV+ +G P
Sbjct: 243 QAAGAVNQDNFSRFAGRVGLFNNQAGDRLLQLADLVICIGYS------PVEYEPAMWNSG 296
Query: 50 NVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
N ++ +D+ + V + D+ T+ +L Q + R + ++ +
Sbjct: 297 NATLVHIDVLPAYEERNYTPDVELVGDIAGTLNKLAQNID--HRLVLSPQAAEILRDRQ 353
>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 = 56.4 bits (137), Expect = 1e-10
Identities = 23/118 (19%), Positives = 40/118 (33%), Gaps = 19/118 (16%)
Query: 1 MGKGVVPDAHPNCV------SAARTHALQNADLVLLLGARLNWMLHFGR------APRFK 48
+ P HP AA + L+ D+VL++GA R K
Sbjct: 237 APRCPFPTRHPCFRGLMPAGIAAISQLLEGHDVVLVIGAP------VFRYHQYDPGQYLK 290
Query: 49 SNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQE 106
++I V + E + AI +D+ L ++ + R +A P +
Sbjct: 291 PGTRLISVTCDPLEAARAPM-GDAIVADIGAMASALANLVEESSRQLPTAAPEPAKVD 347
>2vbi_A Pyruvate decarboxylase; thiamine pyrophosphate, lyase, pyruv
flavoprotein, THDP-dependent enzyme; HET: TPP; 2.75A
{Acetobacter pasteurianus}
Length = 566
Score = 50.2 bits (121), Expect = 1e-08
Identities = 9/103 (8%), Positives = 31/103 (30%), Gaps = 9/103 (8%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNVK 52
KG P+ H + ++ +D +L + N +
Sbjct: 245 AAKGFFPEDHAGFRGLYWGEVSNPGVQELVETSDALLCIAPVFNDY-STVGWSAWPKGPN 303
Query: 53 IIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNW 95
+I + + + +++ ++ ++ + Q++
Sbjct: 304 VILAEPDRVTVDGRAYDGFTLRAFLQALAEKAPARPASAQKSS 346
>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 = 50.2 bits (121), Expect = 2e-08
Identities = 12/116 (10%), Positives = 36/116 (31%), Gaps = 19/116 (16%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHFGRAPRFKSNVK 52
K P+ +P+ + ++ AD V+ L N K
Sbjct: 245 AAKSFFPEENPHYIGTSWGEVSYPGVEKTMKEADAVIALAPVFN-DYSTTGWTDIPDPKK 303
Query: 53 IIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQELK 108
++ + + ++ +V ++ + Q++ + + +++ L
Sbjct: 304 LVLAEPRSVVVNGIRFPSVHLKDYLTRLAQKVSK----------KTGALDFFKSLN 349
>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 = 49.5 bits (119), Expect = 3e-08
Identities = 19/128 (14%), Positives = 45/128 (35%), Gaps = 26/128 (20%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARL------NWMLHFGRAPR 46
MGKG + + HP A+++ADL+L +GA L ++ +
Sbjct: 247 MGKGSIDEQHPRYGGVYVGTLSKPEVKEAVESADLILSVGALLSDFNTGSFSYSYKTK-- 304
Query: 47 FKSNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQE 106
I++ + ++ N+ V ++ ++ +L ++ + + P
Sbjct: 305 -----NIVEFHSDHMKIRNATFPGVQMKFVLQ----KLLTTIADAAKGYK-PVAVPARTP 354
Query: 107 LKLKCQTN 114
+
Sbjct: 355 ANAAVPAS 362
>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 = 49.5 bits (119), Expect = 3e-08
Identities = 21/119 (17%), Positives = 39/119 (32%), Gaps = 22/119 (18%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRF 47
MGKG+ + + A A++ AD VL +G R F
Sbjct: 245 MGKGIFDERQAGFYGTYSGSASTGAVKEAIEGADTVLCVGTR------FTDTLTAGFTHQ 298
Query: 48 KSNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQE 106
+ + I+V +A + + + + + V+ KQ H S++
Sbjct: 299 LTPAQTIEVQPHAARVGDVWFTGIPMNQAIETLVELCKQ---HVHAGLMSSSSGAIPFP 354
>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 = 45.3 bits (108), Expect = 7e-07
Identities = 16/119 (13%), Positives = 40/119 (33%), Gaps = 26/119 (21%)
Query: 1 MGKGVVPDAHPNCV--------SAARTHALQNADLVLLLGARLNWMLHF-----GRAPRF 47
GK V ++ P+ + + + +++AD +L+LG + G
Sbjct: 264 FGKSAVDESLPSFLGIYNGKLSEISLKNFVESADFILMLGVK------LTDSSTGAFTHH 317
Query: 48 KSNVKIIQVDLNAEELHNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSPWWQE 106
K+I ++++ + N V + V + + + ++E
Sbjct: 318 LDENKMISLNIDEGIIFNKVVEDFDFR-AV------VSSLSELKGIEYEGQYIDKQYEE 369
>3p7m_A Malate dehydrogenase; putative dehydrogenase, enzyme, structural
genomics, center structural genomics of infectious
diseases, csgid; 2.20A {Francisella tularensis}
Length = 321
Score = 30.6 bits (70), Expect = 0.080
Identities = 8/42 (19%), Positives = 21/42 (50%), Gaps = 10/42 (23%)
Query: 51 VKIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLS 89
V+ I+V+++ +E L S+ A ++ + ++L+
Sbjct: 286 VRPIEVEISDKEREQLQVSINA-------IKDLNKAAAEILA 320
>1t2d_A LDH-P, L-lactate dehydrogenase; ternary complex, oxidoreductase;
HET: NAD; 1.10A {Plasmodium falciparum} SCOP: c.2.1.5
d.162.1.1 PDB: 1t25_A* 1t26_A* 1t2c_A* 1t24_A* 2x8l_A
2ydn_A* 2a94_A* 1u4s_A* 1u5a_A* 1u5c_A* 1u4o_A* 1t2e_A*
1xiv_A* 1ceq_A 1ldg_A* 1cet_A* 1oc4_A* 2a92_A* 2aa3_A*
Length = 322
Score = 30.2 bits (69), Expect = 0.12
Identities = 6/42 (14%), Positives = 14/42 (33%), Gaps = 10/42 (23%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLSH 90
++I++ LN+EE ++ + H
Sbjct: 288 QVIELQLNSEEKAKFDEAIAE-------TKRMKALAHHHHHH 322
>1guz_A Malate dehydrogenase; oxidoreductase, tricarboxylic acid cycle,
NAD; HET: NAD; 2.0A {Chlorobium vibrioforme} SCOP:
c.2.1.5 d.162.1.1 PDB: 1gv1_A 1gv0_A*
Length = 310
Score = 30.2 bits (69), Expect = 0.13
Identities = 6/40 (15%), Positives = 16/40 (40%), Gaps = 10/40 (25%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQML 88
+I +++L+ + L S + V + L+ +
Sbjct: 277 QIYEINLDQADLDLLQKSAKI-------VDENCKMLESTI 309
>2d4a_B Malate dehydrogenase; archaea, hyperthermophIle, oxidoreductase;
2.87A {Aeropyrum pernix}
Length = 308
Score = 29.8 bits (68), Expect = 0.16
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 10/41 (24%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLS 89
+II++ L +E +VQA V+ V+ L L
Sbjct: 274 RIIELPLTEDEKRKFDEAVQA-------VKKLVETLPPQLR 307
>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 = 30.0 bits (67), Expect = 0.17
Identities = 22/115 (19%), Positives = 38/115 (33%), Gaps = 46/115 (40%)
Query: 3 KGVVPD----A-HPNCVS-------AARTHALQNADLVLLLGARLNWMLHFGRA-----P 45
KG++P A H S A+ + LV ++ R G P
Sbjct: 1750 KGLIPADATFAGH----SLGEYAALASLADVMSIESLVEVVFYR-------GMTMQVAVP 1798
Query: 46 RF---KSNVKIIQVD-------LNAEELHNSVQAAVAIQSDVRLTV-------QQ 83
R +SN +I ++ + E L V+ V ++ + + QQ
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQEALQYVVE-RVGKRTGWLVEIVNYNVENQQ 1852
Score = 25.0 bits (54), Expect = 8.0
Identities = 6/39 (15%), Positives = 14/39 (35%), Gaps = 9/39 (23%)
Query: 64 HNSVQAAVAIQSDVRLTVQQLKQMLSHTQRNWSFSATSP 102
H S++ + + + QL++ F+ P
Sbjct: 13 HGSLEHVLLVPTASFFIASQLQE---------QFNKILP 42
>3nep_X Malate dehydrogenase; halophIle, molecular adpatation, NAD,
oxidoreductase, tricarboxylic acid cycle; 1.55A
{Salinibacter ruber}
Length = 314
Score = 29.4 bits (67), Expect = 0.25
Identities = 10/41 (24%), Positives = 19/41 (46%), Gaps = 10/41 (24%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLS 89
++I+VDL+A+E L S V + L+++
Sbjct: 276 EVIEVDLDADEKAQLKTSAGH-------VHSNLDDLQRLRD 309
>2hjr_A Malate dehydrogenase; malaria, structural genomics, structural
genomics consortium, SGC, oxidoreductase; HET: CIT APR;
2.20A {Cryptosporidium parvum}
Length = 328
Score = 29.0 bits (66), Expect = 0.27
Identities = 9/39 (23%), Positives = 19/39 (48%), Gaps = 10/39 (25%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQM 87
++ V+L+ +E SV++ ++ VQ LK +
Sbjct: 295 DVVIVNLSDDEKSLFSKSVES-------IQNLVQDLKSL 326
>1pzg_A LDH, lactate dehydrogenase; apicomplexa, APAD, tetramer, rossmann
fold, oxidoreductase; HET: CME A3D; 1.60A {Toxoplasma
gondii} SCOP: c.2.1.5 d.162.1.1 PDB: 1pzf_A* 1pze_A*
1pzh_A* 3om9_A* 1sov_A 1sow_A* 3czm_A*
Length = 331
Score = 29.1 bits (66), Expect = 0.29
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 10/41 (24%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLS 89
++I+++LN EE SV V + + + +
Sbjct: 296 RVIELELNEEEKKQFQKSVDD-------VMALNKAVAALQA 329
>1ur5_A Malate dehydrogenase; oxidoreductase, tricarboxylic acid cycle;
HET: NAD; 1.75A {Chloroflexus aurantiacus} SCOP: c.2.1.5
d.162.1.1 PDB: 1uxg_A* 1guy_A* 1uxk_A* 1uxh_A* 1uxj_A*
1uxi_A*
Length = 309
Score = 28.2 bits (64), Expect = 0.52
Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 10/39 (25%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQM 87
KI+++ LN EE L+ S +A VR T+ LK +
Sbjct: 278 KILELPLNEEEMALLNASAKA-------VRATLDTLKSL 309
>2ewd_A Lactate dehydrogenase,; protein-substrate_cofactor analog complex,
oxidoreductase; HET: A3D; 2.00A {Cryptosporidium parvum}
PDB: 2frm_A 2fn7_A* 2fnz_A* 2fm3_A
Length = 317
Score = 28.2 bits (64), Expect = 0.65
Identities = 8/37 (21%), Positives = 13/37 (35%), Gaps = 10/37 (27%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLK 85
I+++DL E L S+ V + L
Sbjct: 285 DILELDLTPLEQKLLGESINE-------VNTISKVLD 314
>3ivz_A Nitrilase; alpha-beta sandwich, hydrolase; 1.57A {Pyrococcus
abyssi} PDB: 3iw3_A 3ki8_A 3klc_A 1j31_A
Length = 262
Score = 28.0 bits (63), Expect = 0.74
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 16 AARTHALQNADLVLLLGARLNWMLHFGRA 44
+ART AL+ AD++ ++ +
Sbjct: 154 SARTLALKGADVIAHPAN---LVMPYAPR 179
>1hye_A L-lactate/malate dehydrogenase; nucleotide binding domain,
oxidoreductase; HET: NAP; 1.90A {Methanocaldococcus
jannaschii} SCOP: c.2.1.5 d.162.1.1 PDB: 1hyg_A*
Length = 313
Score = 27.5 bits (62), Expect = 0.88
Identities = 4/39 (10%), Positives = 18/39 (46%), Gaps = 10/39 (25%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQM 87
+++ ++L+ +E S + ++ +++K +
Sbjct: 282 EVVSIELDKDEIIAFRKSAEI-------IKKYCEEVKNL 313
>3gvi_A Malate dehydrogenase; NAD, oxidoreductase, tricarboxylic acid
cycle, structural genomics; HET: ADP; 2.25A {Brucella
melitensis biovar ABORTUS2308} PDB: 3gvh_A*
Length = 324
Score = 27.5 bits (62), Expect = 1.0
Identities = 8/39 (20%), Positives = 16/39 (41%), Gaps = 10/39 (25%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQM 87
+II++DL+ +E SV + V + +
Sbjct: 288 RIIEIDLDKDEKAQFDKSVAS-------VAGLCEACIGI 319
>2yx6_A Hypothetical protein PH0822; structural genomics, unknown
function, NPPSFA, national PROJ protein structural and
functional analyses; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 121
Score = 27.1 bits (60), Expect = 1.1
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 6/42 (14%)
Query: 40 HFGRAPRFK------SNVKIIQVDLNAEELHNSVQAAVAIQS 75
HFGR+ F +VK ++V E H I+
Sbjct: 20 HFGRSRYFVFVDIEGEDVKNVEVVEVPFEEHGPGDLPNFIKD 61
>4aj2_A L-lactate dehydrogenase A chain; oxidoreductase-inhibitor complex,
fragment-based LEAD genera inhibitors; HET: 52C; 1.75A
{Rattus norvegicus} PDB: 4aj1_A* 4aje_A* 4ajh_A* 4aji_A*
4ajj_A* 4ajk_A* 4ajl_A* 4ajn_A* 4ajo_A* 4al4_A* 4aj4_A*
4ajp_A* 1i10_A* 3h3f_A* 9ldt_A* 9ldb_A* 1t2f_A* 1i0z_A*
5ldh_A* 1ldm_A* ...
Length = 331
Score = 27.5 bits (62), Expect = 1.1
Identities = 7/31 (22%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRL 79
+++V L +E L S IQ +++
Sbjct: 301 DVVKVTLTPDEEARLKKSADTLWGIQKELQF 331
>1oju_A MDH, malate dehydrogenase; hyperthermophilic, oxidoreductase; HET:
ENA; 2.79A {Archaeoglobus fulgidus} SCOP: c.2.1.5
d.162.1.1 PDB: 1ojs_A* 2x0i_A* 2x0j_A*
Length = 294
Score = 27.1 bits (61), Expect = 1.2
Identities = 8/38 (21%), Positives = 17/38 (44%), Gaps = 10/38 (26%)
Query: 51 VKIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLK 85
++ + L+ EE L NS + +R +++L
Sbjct: 263 AEVADIKLSDEEIEKLRNSAKI-------LRERLEELG 293
>3ldh_A Lactate dehydrogenase; oxidoreductase, CHOH donor, NAD acceptor;
HET: NAD; 3.00A {Squalus acanthias} SCOP: i.12.1.1
Length = 330
Score = 27.3 bits (61), Expect = 1.2
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRL 79
I+++ L +E L S IQ D++
Sbjct: 300 NIVKMKLKPDEEQQLQKSATTLWDIQKDLKF 330
>2qtd_A Uncharacterized protein MJ0327; ribonuclease H-like motif fold,
iron-molybdenum cofactor, ST genomics; HET: MSE PG4;
1.70A {Methanocaldococcus jannaschii dsm
2661ORGANISM_TAXID} PDB: 2kla_A
Length = 105
Score = 26.2 bits (58), Expect = 1.7
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 8/38 (21%)
Query: 40 HFGRAPRFKSNVKIIQVD----LNAEELHNSVQAAVAI 73
F F I+++D + + + N +I
Sbjct: 19 SFEDCKYF----LIVRIDDNEVKSTKVIFNDESGKKSI 52
>3tl2_A Malate dehydrogenase; center for structural genomics of infectious
diseases, csgid dehydrogenase, oxidoreductase, citric
acid cycle; 1.70A {Bacillus anthracis}
Length = 315
Score = 26.7 bits (60), Expect = 1.9
Identities = 9/21 (42%), Positives = 15/21 (71%), Gaps = 3/21 (14%)
Query: 52 KIIQVDLNAEE---LHNSVQA 69
KII+++L A+E L SV++
Sbjct: 286 KIIELELLADEKEALDRSVES 306
>2i6t_A Ubiquitin-conjugating enzyme E2-like isoform A; L-lactate
dehydrogenase, oxidoreductase, ubiquitin-protein L
unknown function; 2.10A {Homo sapiens} PDB: 3dl2_A
Length = 303
Score = 26.4 bits (59), Expect = 2.7
Identities = 6/32 (18%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 52 KIIQVDLNAEE----LHNSVQAAVAIQSDVRL 79
++I+ L + L +S + ++Q ++L
Sbjct: 272 EVIKTTLKEDTVTEKLQSSASSIHSLQQQLKL 303
>1ez4_A Lactate dehydrogenase; rossmann fold, oxidoreductase; HET: NAD;
2.30A {Lactobacillus pentosus} SCOP: c.2.1.5 d.162.1.1
Length = 318
Score = 26.3 bits (59), Expect = 2.8
Identities = 7/29 (24%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDV 77
+II+ L+A+E + +S + +D
Sbjct: 283 QIIESPLSADELKKMQDSAATLKKVLNDG 311
>2zqz_A L-LDH, L-lactate dehydrogenase; oxidoreductase, rossmann fold,
cytoplasm, glycolysis, NAD, phosphoprotein; 2.50A
{Lactobacillus casei} PDB: 2zqy_A 3vkv_A* 1llc_A*
Length = 326
Score = 25.9 bits (58), Expect = 3.5
Identities = 5/29 (17%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDV 77
I+++ L E + S + +D
Sbjct: 288 NILEIPLTDHEEESMQKSASQLKKVLTDA 316
>2wfb_A Putative uncharacterized protein ORP; mixed molybdenum-copper
sulphide cluster, alpha and beta protein, biosynthetic
protein; 2.00A {Desulfovibrio gigas}
Length = 120
Score = 25.5 bits (56), Expect = 3.7
Identities = 7/43 (16%), Positives = 13/43 (30%), Gaps = 6/43 (13%)
Query: 40 HFGRAPRFK------SNVKIIQVDLNAEELHNSVQAAVAIQSD 76
FGRA F + + + H + A + +
Sbjct: 23 RFGRAAGFVVVDAATMAAEYVDNGASQTLSHGAGINAAQVLAK 65
>1o6z_A MDH, malate dehydrogenase; halophilic, ION-binding, protein-solvent
interaction, oxidoreductase; HET: NAD; 1.95A {Haloarcula
marismortui} SCOP: c.2.1.5 d.162.1.1 PDB: 1gt2_A*
2x0r_A* 2j5k_A 2j5q_A 2j5r_A 1d3a_A 1hlp_A* 2hlp_A
Length = 303
Score = 25.9 bits (58), Expect = 3.9
Identities = 4/29 (13%), Positives = 13/29 (44%), Gaps = 3/29 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDV 77
+I++ DL+ E + ++ + +
Sbjct: 274 EIVEWDLDDYEQDLMADAAEKLSDQYDKI 302
>2v6b_A L-LDH, L-lactate dehydrogenase; oxidoreductase, radioresistance,
NAD, cytoplasm, mesophilic, glycolysis; 2.50A
{Deinococcus radiodurans}
Length = 304
Score = 25.5 bits (57), Expect = 4.5
Identities = 5/32 (15%), Positives = 10/32 (31%), Gaps = 3/32 (9%)
Query: 51 VKIIQVDLNAEE---LHNSVQAAVAIQSDVRL 79
+ + L +E L S + + L
Sbjct: 273 LSTLHPKLTGDEQQKLEQSAGVLRGFKQQLGL 304
>2fts_A Gephyrin; gephyrin, neuroreceptor anchoring, structu protein; 2.41A
{Rattus norvegicus} SCOP: b.85.6.1 b.103.1.1 c.57.1.2
PDB: 2fu3_A 1t3e_A
Length = 419
Score = 25.6 bits (57), Expect = 4.6
Identities = 8/29 (27%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 4 GVVPDAHPNCVSAARTHALQNADLVLLLG 32
G+V D +P+ + A + AD+++ G
Sbjct: 228 GIVGD-NPDDLLNALNEGISRADVIITSG 255
>1a5z_A L-lactate dehydrogenase; oxidoreductase, glycolysis,
hyperthermophiles, thermotoga MA protein stability; HET:
FBP NAD; 2.10A {Thermotoga maritima} SCOP: c.2.1.5
d.162.1.1
Length = 319
Score = 25.5 bits (57), Expect = 4.7
Identities = 7/45 (15%), Positives = 18/45 (40%), Gaps = 10/45 (22%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQMLSHTQR 93
+I++++LN EE S ++ + ++ + Q
Sbjct: 279 RILELNLNEEELEAFRKSASI-------LKNAINEITAEENKHQN 316
>1g8l_A Molybdopterin biosynthesis MOEA protein; molybdenum cofactor
biosynthesis, metal binding protein; 1.95A {Escherichia
coli} SCOP: b.85.6.1 b.103.1.1 c.57.1.2 PDB: 1fc5_A
1g8r_A 2nqu_A 2nro_A 2nqq_A 2nqk_A 2nqr_A 2nqm_A 2nqs_A
2nrp_A 2nqv_A 2nrs_A 2nqn_A
Length = 411
Score = 25.6 bits (57), Expect = 4.7
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 4 GVVPDAHPNCVSAARTHALQNADLVLLLG 32
G++ D P+ + AA A AD+V+ G
Sbjct: 224 GIIRD-DPHALRAAFIEADSQADVVISSG 251
>1rdu_A Conserved hypothetical protein; atnos, candid, structural
genomics, joint center for structu genomics, JCSG,
protein structure initiative; NMR {Thermotoga maritima}
SCOP: c.55.5.1
Length = 116
Score = 24.8 bits (54), Expect = 5.6
Identities = 4/9 (44%), Positives = 4/9 (44%)
Query: 40 HFGRAPRFK 48
F RA F
Sbjct: 20 RFARAEYFI 28
>1y6j_A L-lactate dehydrogenase; southeast collaboratory for structural
genomics, secsg, protein struc initiative, PSI,
oxidoreductase; 3.01A {Clostridium thermocellum} SCOP:
c.2.1.5 d.162.1.1
Length = 318
Score = 25.1 bits (56), Expect = 6.4
Identities = 7/30 (23%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVR 78
+++Q +L EE L S + + ++V+
Sbjct: 287 EVLQFNLTPEEEEALRFSAEQVKKVLNEVK 316
>2xxj_A L-LDH, L-lactate dehydrogenase; oxidoreductase, hyperthermophIle;
HET: NAD; 1.964A {Thermus thermophilus} PDB: 2xxb_A*
3zzn_A* 2v7p_A* 2e37_A* 2v6m_A* 2xxe_A 4a73_A
Length = 310
Score = 25.1 bits (56), Expect = 7.0
Identities = 5/31 (16%), Positives = 9/31 (29%), Gaps = 3/31 (9%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRL 79
+ L+ EE L S + +
Sbjct: 280 GTVYPSLSPEERAALRRSAEILKEAAFALGF 310
>3d0o_A L-LDH 1, L-lactate dehydrogenase 1; cytoplasm, glycolysis, NAD,
oxidoreductase, phosphoprotein; 1.80A {Staphylococcus
aureus} PDB: 3d4p_A* 3h3j_A*
Length = 317
Score = 25.1 bits (56), Expect = 7.6
Identities = 6/29 (20%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDV 77
++++ LN EE +S + I ++
Sbjct: 285 NVVEIPLNDEEQSKFAHSAKTLKDIMAEA 313
>1eo1_A Hypothetical protein MTH1175; mixed A/B protein, mixed beta
sheet, strand order 321456; NMR
{Methanothermobacterthermautotrophicus} SCOP: c.55.5.1
Length = 124
Score = 24.4 bits (53), Expect = 7.7
Identities = 6/8 (75%), Positives = 6/8 (75%)
Query: 40 HFGRAPRF 47
FGRAP F
Sbjct: 19 FFGRAPYF 26
>1lld_A L-lactate dehydrogenase; oxidoreductase(CHOH (D)-NAD (A)); HET:
NAD; 2.00A {Bifidobacterium longum subsp} SCOP: c.2.1.5
d.162.1.1 PDB: 1lth_T*
Length = 319
Score = 24.8 bits (55), Expect = 7.8
Identities = 4/31 (12%), Positives = 9/31 (29%), Gaps = 3/31 (9%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDVRL 79
I ++ +E L S + +
Sbjct: 289 NTINTPVSDKELAALKRSAETLKETAAQFGF 319
>1hyh_A L-hicdh, L-2-hydroxyisocaproate dehydrogenase;
L-2-hydroxycarboxylate dehydrogenase, L-lactate
dehydrogenas oxidoreductase (CHOH(D)-NAD+(A)); HET: NAD;
2.20A {Weissella confusa} SCOP: c.2.1.5 d.162.1.1
Length = 309
Score = 24.8 bits (55), Expect = 8.5
Identities = 6/41 (14%), Positives = 13/41 (31%), Gaps = 10/41 (24%)
Query: 51 VKIIQVDLNAEE---LHNSVQAAVAIQSDVRLTVQQLKQML 88
+ +DL +E L S ++ ++ L
Sbjct: 276 LAETTLDLTTDEQEKLLQSRDY-------IQQRFDEIVDTL 309
>1ldn_A L-lactate dehydrogenase; oxidoreductase(CHOH(D)-NAD(A)); HET: FBP
NAD; 2.50A {Geobacillus stearothermophilus} SCOP:
c.2.1.5 d.162.1.1 PDB: 1ldb_A 2ldb_A*
Length = 316
Score = 24.8 bits (55), Expect = 9.8
Identities = 6/29 (20%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 52 KIIQVDLNAEE---LHNSVQAAVAIQSDV 77
++I+++LN +E H+S ++ +
Sbjct: 286 EVIEIELNDDEKNRFHHSAATLKSVLARA 314
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 0.129 0.396
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,735,132
Number of extensions: 84271
Number of successful extensions: 297
Number of sequences better than 10.0: 1
Number of HSP's gapped: 266
Number of HSP's successfully gapped: 60
Length of query: 120
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 38
Effective length of database: 4,412,271
Effective search space: 167666298
Effective search space used: 167666298
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)