RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15960
(177 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 = 113 bits (286), Expect = 4e-30
Identities = 51/115 (44%), Positives = 73/115 (63%), Gaps = 7/115 (6%)
Query: 65 DESVPLNYYAAIHAVQVSI--PDNCIIVGEGANTMDIGRSLLLNNLPRHRLDAGTFGTMG 122
S +NY ++ V+ + + +V EGAN +D R ++ PR RLD+GT+G MG
Sbjct: 370 TPSGMMNYSNSLGVVRDFMLANPDISLVNEGANALDNTRMIVDMLKPRKRLDSGTWGVMG 429
Query: 123 VGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
+G+G+ +AAA GK V+ V+GDSAFGFSGMELET+ RY LPV ++I+ N
Sbjct: 430 IGMGYCVAAAA-----VTGKPVIAVEGDSAFGFSGMELETICRYNLPVTVIIMNN 479
>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 = 113 bits (285), Expect = 7e-30
Identities = 53/115 (46%), Positives = 77/115 (66%), Gaps = 7/115 (6%)
Query: 65 DESVPLNYYAAIHAVQVSI--PDNCIIVGEGANTMDIGRSLLLNNLPRHRLDAGTFGTMG 122
++ PLNY+ A+ AV+ + + +V EGANT+D R+++ PR RLD GT+G MG
Sbjct: 365 TDTQPLNYFNALSAVRDVLRENQDIYLVNEGANTLDNARNIIDMYKPRRRLDCGTWGVMG 424
Query: 123 VGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
+G+G+A+ A++ G VV ++GDSAFGFSGME+ET+ RY LPV +VI N
Sbjct: 425 IGMGYAIGASV-----TSGSPVVAIEGDSAFGFSGMEIETICRYNLPVTIVIFNN 474
>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 = 3e-15
Identities = 33/150 (22%), Positives = 62/150 (41%), Gaps = 9/150 (6%)
Query: 32 MRDLIQRAKVEEGEMKVGGNMRGVDSAVEKM---IQDESVPLNYYAAIHAVQVSIPDNCI 88
+ +++ + E N++ + + E + E L +Y +A+ ++ I
Sbjct: 323 IDEILNKVDAVEESAWWTANLKNIANWREYINMLETKEEGDLQFYQVYNAINNHADEDAI 382
Query: 89 IVGE-GANTMDIGRSLLLNNLPRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCV 147
+ G +T R L + + F TMG+ + L A P ++V +
Sbjct: 383 YSIDVGNSTQTSIRHLHMTP-KNMWRTSPLFATMGIAIPGGLGAKNTY----PDRQVWNI 437
Query: 148 QGDSAFGFSGMELETLVRYRLPVILVILYN 177
GD AF + ++ T VRY +PVI V+ N
Sbjct: 438 IGDGAFSMTYPDVVTNVRYNMPVINVVFSN 467
>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 = 70.6 bits (174), Expect = 6e-15
Identities = 26/69 (37%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
R + + TMGV L +A+ A L P ++VV V GD F S MELET VR +
Sbjct: 410 ARQVMISNGQQTMGVALPWAIGAWLVN----PERKVVSVSGDGGFLQSSMELETAVRLKA 465
Query: 169 PVILVILYN 177
V+ +I +
Sbjct: 466 NVLHLIWVD 474
>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 = 64.6 bits (158), Expect = 8e-13
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 4/70 (5%)
Query: 108 LPRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYR 167
+ + G + MG G+ + A GKR++ V GD AF +G EL R
Sbjct: 411 IDAGLMAPGYYAGMGFGVPAGIGAQCVS----GGKRILTVVGDGAFQMTGWELGNCRRLG 466
Query: 168 LPVILVILYN 177
+ I+++ N
Sbjct: 467 IDPIVILFNN 476
>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 = 63.4 bits (155), Expect = 2e-12
Identities = 35/118 (29%), Positives = 51/118 (43%), Gaps = 12/118 (10%)
Query: 64 QDESVPLNYYAAIHAVQVSIPDNCIIVGE-GANTMDIGRSLLLNNLPRHRLDAGTFGTMG 122
+ PL Y + AV + I + G ++ R L L + + F TMG
Sbjct: 365 DKQEGPLQAYQVLRAVNKIAEPDAIYSIDVGDINLNANRHLKLTP-SNRHITSNLFATMG 423
Query: 123 VGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGM---ELETLVRYRLPVILVILYN 177
VG+ A+AA L P ++V + GD M +L T V+Y LPVI V+ N
Sbjct: 424 VGIPGAIAAKLNY----PERQVFNLAGDGGAS---MTMQDLATQVQYHLPVINVVFTN 474
>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 = 62.9 bits (154), Expect = 3e-12
Identities = 26/104 (25%), Positives = 44/104 (42%), Gaps = 6/104 (5%)
Query: 75 AIHAVQVSIPDNCIIVGE-GANTMDIGRSLLLNNLPRHRLDAGTFGTMGVGLGFALAAAL 133
+ D+ I + G T+ R L +N R L + G+M + AL A
Sbjct: 362 LAQQISHFAADDAIFTCDVGTPTVWAARYLKMNG-KRRLLGSFNHGSMANAMPQALGAQA 420
Query: 134 YCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
P ++VV + GD F + ++V+ +LPV +V+ N
Sbjct: 421 TE----PERQVVAMCGDGGFSMLMGDFLSVVQMKLPVKIVVFNN 460
>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 = 62.6 bits (153), Expect = 3e-12
Identities = 26/115 (22%), Positives = 47/115 (40%), Gaps = 3/115 (2%)
Query: 64 QDESVPLNYYAAIHAVQVSIPDNCIIVGE-GANTMDIGRSLLLNNLPRHRLDAGTFGTMG 122
S PL + + + + +++ E G + I N + + +G++G
Sbjct: 359 VPASTPLKQEWMWNQLGNFLQEGDVVIAETGTSAFGI-NQTTFPN-NTYGISQVLWGSIG 416
Query: 123 VGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
G L AA P KRV+ GD + + E+ T++R+ L L +L N
Sbjct: 417 FTTGATLGAAFAAEEIDPKKRVILFIGDGSLQLTVQEISTMIRWGLKPYLFVLNN 471
>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 = 62.2 bits (152), Expect = 5e-12
Identities = 29/69 (42%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
P L G G+MGVG G AL A + G+R + V GD + G+S E +TLVR +L
Sbjct: 409 PGGFLCHGYLGSMGVGFGTALGAQVADLE--AGRRTILVTGDGSVGYSIGEFDTLVRKQL 466
Query: 169 PVILVILYN 177
P+I++I+ N
Sbjct: 467 PLIVIIMNN 475
>2pan_A Glyoxylate carboligase; thiamin-diphosphate (THDP),
thimain-dependent enzymes, FAD, lyase; HET: FAD TDP 1PE;
2.70A {Escherichia coli}
Length = 616
Score = 61.5 bits (150), Expect = 9e-12
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
RH ++ G G +G + AL P + VV + GD F F EL ++ +
Sbjct: 432 DRHWINCGQAGPLGWTIPAALGVCAAD----PKRNVVAISGDFDFQFLIEELAVGAQFNI 487
Query: 169 PVILVILYN 177
P I V++ N
Sbjct: 488 PYIHVLVNN 496
>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 = 61.0 bits (149), Expect = 1e-11
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
PR + + G +G G AL A L P RV GD A + E V ++L
Sbjct: 414 PRRLVTSMAEGILGCGFPMALGAQLAE----PNSRVFLGTGDGALYYHFNEFRVAVEHKL 469
Query: 169 PVILVILYN 177
PVI ++ N
Sbjct: 470 PVITMVFTN 478
>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 = 60.3 bits (147), Expect = 2e-11
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
P L + + G G+ A+ A + P + + GD F + +LET+ R L
Sbjct: 426 PFGFLTSAGCSSFGYGIPAAIGAQMAR----PDQPTFLIAGDGGFHSNSSDLETIARLNL 481
Query: 169 PVILVILYN 177
P++ V++ N
Sbjct: 482 PIVTVVVNN 490
>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 = 59.9 bits (146), Expect = 3e-11
Identities = 25/114 (21%), Positives = 41/114 (35%), Gaps = 7/114 (6%)
Query: 65 DESVPLNYYAAIHAVQVSIPDNCIIVGE-GANTMDIGRSLLLNNLPRHRLDAGTFGTMGV 123
S PL+ AV+ N IV E G + L + + +G++G
Sbjct: 372 PSSAPLSQDRLWQAVESLTQSNETIVAEQGTSFFGASTIFLKS--NSRFIGQPLWGSIGY 429
Query: 124 GLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
AL + + R + GD + + EL +R +L I I+ N
Sbjct: 430 TFPAALGSQIA----DKESRHLLFIGDGSLQLTVQELGLSIREKLNPICFIINN 479
>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 = 59.6 bits (145), Expect = 4e-11
Identities = 23/69 (33%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
P + +G GTMG GL A+ A + P V+ + GD++F + EL + V+
Sbjct: 503 PHTFITSGGLGTMGYGLPAAIGAQVAK----PESLVIDIDGDASFNMTLTELSSAVQAGT 558
Query: 169 PVILVILYN 177
PV ++IL N
Sbjct: 559 PVKILILNN 567
>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 = 59.1 bits (144), Expect = 6e-11
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
P G +G L A+ L P ++V+ V GD + +S L T +Y +
Sbjct: 392 PGSYYFCAA-GGLGFALPAAIGVQLAE----PERQVIAVIGDGSANYSISALWTAAQYNI 446
Query: 169 PVILVILYN 177
P I VI+ N
Sbjct: 447 PTIFVIMNN 455
>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 = 57.5 bits (140), Expect = 2e-10
Identities = 25/69 (36%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 109 PRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
PR L +G G MG GL A+ A++ P VV + GD +F + EL T+ L
Sbjct: 416 PRQWLSSGGLGAMGFGLPAAIGASVAN----PDAIVVDIDGDGSFIMNVQELATIRVENL 471
Query: 169 PVILVILYN 177
PV +++L N
Sbjct: 472 PVKVLLLNN 480
>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 = 57.2 bits (139), Expect = 3e-10
Identities = 26/110 (23%), Positives = 45/110 (40%), Gaps = 21/110 (19%)
Query: 76 IHAVQVSIPDNCIIVGE------GANTMDIGRSLLLNNLPRHR--LDAGTFGTMGVGLGF 127
+Q I II+ + GA + LP + +G++G L
Sbjct: 366 WRTLQTFIRPGDIILADQGTSAFGAIDL---------RLPADVNFIVQPLWGSIGYTLAA 416
Query: 128 ALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
A A C P +RV+ + GD A + EL +++R + I+++L N
Sbjct: 417 AFGAQTAC----PNRRVIVLTGDGAAQLTIQELGSMLRDKQHPIILVLNN 462
>2vbi_A Pyruvate decarboxylase; thiamine pyrophosphate, lyase, pyruv
flavoprotein, THDP-dependent enzyme; HET: TPP; 2.75A
{Acetobacter pasteurianus}
Length = 566
Score = 56.0 bits (136), Expect = 6e-10
Identities = 25/110 (22%), Positives = 44/110 (40%), Gaps = 21/110 (19%)
Query: 76 IHAVQVSIPDNCIIVGE------GANTMDIGRSLLLNNLPRHR--LDAGTFGTMGVGLGF 127
+ + + N +V E A M LPR +G +G +
Sbjct: 367 VRHINALLTSNTTLVAETGDSWFNAMRM---------TLPRGARVELEMQWGHIGWSVPS 417
Query: 128 ALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
A A+ + ++ V + GD +F + E+ +VRY LPVI+ ++ N
Sbjct: 418 AFGNAMG----SQDRQHVVMVGDGSFQLTAQEVAQMVRYELPVIIFLINN 463
>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 = 56.0 bits (136), Expect = 6e-10
Identities = 29/122 (23%), Positives = 48/122 (39%), Gaps = 21/122 (17%)
Query: 64 QDESVPLNYYAAIHAVQVSIPDNCIIVGE------GANTMDIGRSLLLNNLPRHR--LDA 115
D S PL V+ + N ++ E A M LP
Sbjct: 359 ADPSAPLVNAEIARQVEALLTPNTTVIAETGDSWFNAQRM---------KLPNGARVEYE 409
Query: 116 GTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVIL 175
+G +G + A A+ AP +R + + GD +F + E+ +VR +LPVI+ ++
Sbjct: 410 MQWGHIGWSVPAAFGYAVG----APERRNILMVGDGSFQLTAQEVAQMVRLKLPVIIFLI 465
Query: 176 YN 177
N
Sbjct: 466 NN 467
>2x7j_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene -1-carboxylate
synthase; transferase, metal-binding; HET: TPP; 2.35A
{Bacillus subtilis}
Length = 604
Score = 55.6 bits (134), Expect = 1e-09
Identities = 19/110 (17%), Positives = 40/110 (36%), Gaps = 6/110 (5%)
Query: 69 PLNYYAAIHAVQVSIPDNCIIVGEGANTMDIGRSLLLNNLPRHRLDAGTFGTMGV-GLGF 127
+Q +P+N + N+M I R + + R + G G+
Sbjct: 404 VSFEGNLYRILQHLVPENSSLFV--GNSMPI-RDVDTFFEKQDR-PFRIYSNRGANGIDG 459
Query: 128 ALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILYN 177
+++A+ V V GD +F L + +P+ ++++ N
Sbjct: 460 VVSSAMGV-CEGTKAPVTLVIGDLSFYHDLNGLLAAKKLGIPLTVILVNN 508
>3lq1_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene- 1-carboxylate
synthase; menaquinone biosynthesis, sephchc synthase,
structural genomics; 2.60A {Listeria monocytogenes}
Length = 578
Score = 52.5 bits (126), Expect = 1e-08
Identities = 18/121 (14%), Positives = 43/121 (35%), Gaps = 8/121 (6%)
Query: 58 AVEKMIQDESVPLNYYAAIHAVQVSIPDNCII-VGEGANTMDIGRSLLLNNLPRHRLDAG 116
V + + + L + ++ +PD + +G D+ + L
Sbjct: 375 IVLAEMANTT-ILEEGKIVAELRRLLPDKAGLFIGNSMPIRDVDTYFSQIDKKIKMLANR 433
Query: 117 TFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVILVILY 176
+ + AL A++ + + + GD +F L +Y++ + +VI+
Sbjct: 434 GANGIDGVVSSALGASV------VFQPMFLLIGDLSFYHDMNGLLMAKKYKMNLTIVIVN 487
Query: 177 N 177
N
Sbjct: 488 N 488
>3hww_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene- carboxylate
synthase; menaquinone, THDP, Mg, vitamin K2,
carboxylase, magnesium; HET: AKG; 1.95A {Escherichia
coli k-12} PDB: 3flm_A* 3hwx_A* 2jlc_A* 2jla_A*
Length = 556
Score = 47.9 bits (114), Expect = 4e-07
Identities = 23/126 (18%), Positives = 48/126 (38%), Gaps = 14/126 (11%)
Query: 56 DSAVEKMIQDESVPLNYYAAIHAVQVSIPDNCIIVGEGANTMDIGRSL---LLNNLPRHR 112
+ A++ +I H + +P+ + +G SL L++ L +
Sbjct: 354 EQAMQAVIARRD-AFGEAQLAHRICDYLPEQGQLF--------VGNSLVVRLIDALSQLP 404
Query: 113 LDAGTFGTMGV-GLGFALAAALYCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRLPVI 171
+ G G+ L+ A A GK + + GD + + L L + P++
Sbjct: 405 AGYPVYSNRGASGIDGLLSTAAGV-QRASGKPTLAIVGDLSALYDLNALALLRQVSAPLV 463
Query: 172 LVILYN 177
L+++ N
Sbjct: 464 LIVVNN 469
>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 = 45.4 bits (107), Expect = 3e-06
Identities = 28/199 (14%), Positives = 62/199 (31%), Gaps = 67/199 (33%)
Query: 25 GAR-RRIRMR-DLIQRAKVEEGEMKVGGNMRGVDSAVEK-MIQDESVPLN--YYA--AIH 77
G + +RIR + + +G++K + ++ + E L+ + A+
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT 1737
Query: 78 AVQVSI----------PDNCII----VGE------GANTMDIG--------RSLLLNN-L 108
++ + P + +GE A+ M I R + + +
Sbjct: 1738 LMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV 1797
Query: 109 PRHRLDAGTFGTMGV-----GLGFALAAALYC---------------NHYAPGKRVVCVQ 148
PR L +G + + F+ A Y N+ ++ V
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVA-- 1855
Query: 149 GDSAFGFSG-ME-LETLVR 165
+G + L+T+
Sbjct: 1856 -------AGDLRALDTVTN 1867
Score = 36.6 bits (84), Expect = 0.003
Identities = 25/130 (19%), Positives = 34/130 (26%), Gaps = 41/130 (31%)
Query: 52 MRGVD--SAVEKMIQDESVPL--------NYYAAIHAVQVSIPDNCIIVGEGANTMDIGR 101
+ G D + K++Q+ L NY A +
Sbjct: 96 LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK-------------SN 142
Query: 102 SLLLNNLPRHRLDAGTFGTMGVGLG-----FA-LAAALYCNHYAPGKRVVCVQGDSAFGF 155
S L + +A G G G F L LY Y V F
Sbjct: 143 SALFRAVGEG--NAQLVAIFG-GQGNTDDYFEEL-RDLY-QTYHV-----LVG--DLIKF 190
Query: 156 SGMELETLVR 165
S L L+R
Sbjct: 191 SAETLSELIR 200
Score = 34.6 bits (79), Expect = 0.015
Identities = 27/164 (16%), Positives = 51/164 (31%), Gaps = 50/164 (30%)
Query: 28 RRIRMRDLIQRAKVEEGEMKVGGNMRGV-----------DSAVEKMIQDESVPLNYYAAI 76
R+ + + ++++ E K+ + R + A + + +D +
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV---KNNVSF 450
Query: 77 HAVQVSIPDNCIIV---GEGAN----TMDIGRSL-------------LLNNLPRHRLDAG 116
+A + IP V +G++ + I + H LD G
Sbjct: 451 NAKDIQIP-----VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFG 505
Query: 117 TFGTMGVGLGFALAAALYCNHYAPGKRVVCV-----QGDSAFGF 155
G G+G L N G RV+ D +GF
Sbjct: 506 PGGASGLG---VLTHR---NKDGTGVRVIVAGTLDINPDDDYGF 543
Score = 26.6 bits (58), Expect = 5.9
Identities = 16/88 (18%), Positives = 32/88 (36%), Gaps = 24/88 (27%)
Query: 6 GKIRKKEEEKEGDEEVKRVGARRRIRMRDLIQRAKVE------EGEMKV-GGNMRGVDSA 58
G++ ++ V+RVG R VE E + V G++R +D+
Sbjct: 1815 GRVAASFSQEALQYVVERVGKR---------TGWLVEIVNYNVENQQYVAAGDLRALDTV 1865
Query: 59 VE--KMIQDESVPLNYYAAIHAVQVSIP 84
I+ + + + +Q S+
Sbjct: 1866 TNVLNFIKLQKIDII------ELQKSLS 1887
>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 = 33.0 bits (74), Expect = 0.023
Identities = 8/42 (19%), Positives = 21/42 (50%), Gaps = 13/42 (30%)
Query: 42 EEGEMKVGGNMRGVDSAVEKMIQDESVPLNYYAAIHAVQVSI 83
E+ +K + +++ K+ D+S P A+ A++ ++
Sbjct: 18 EKQALK------KLQASL-KLYADDSAP-----AL-AIKATM 46
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.14
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 16/73 (21%)
Query: 7 KIRKKEEEKEGDEEVKRVGARRRIRMRDLIQRAKVEEGEM---------KVGGNMRGVDS 57
IRK EE+ + ++ + A ++ ++ ++AK + E K N R D
Sbjct: 86 SIRKWREEQR--KRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD- 142
Query: 58 AVEKMIQ--DESV 68
+ Q D +
Sbjct: 143 --KAFYQQPDADI 153
>3pt5_A NANS (YJHS), A 9-O-acetyl N-acetylneuraminic acid; SGNH hydrolase,
9-O-acetyl N-acetylneuraminic acid esterase, structural
genomics; 1.60A {Escherichia coli O157}
Length = 337
Score = 30.8 bits (68), Expect = 0.21
Identities = 13/47 (27%), Positives = 18/47 (38%)
Query: 107 NLPRHRLDAGTFGTMGVGLGFALAAALYCNHYAPGKRVVCVQGDSAF 153
+ P +GT+G L A + A V C +G SAF
Sbjct: 90 HHPLATNHQTQYGTVGQALHIARKLLPFIPDNAGILIVPCCRGGSAF 136
>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 = 30.6 bits (68), Expect = 0.25
Identities = 24/155 (15%), Positives = 49/155 (31%), Gaps = 30/155 (19%)
Query: 18 DEEVKRVGARRRIRMRDLIQRAKVEEGEMKVGGNMRGVDSAVEKMIQDESVPLNY---YA 74
EE+ + I +D + + V VE++++ NY +
Sbjct: 48 KEEIDHI-----IMSKDAVSGTLRLFWTLLSKQE-EMVQKFVEEVLRI-----NYKFLMS 96
Query: 75 AIHAVQVSIPDNCIIVGEGANTM-DIGRSLLLNNLPRHRLDAGTFGTMGVGLGFALAAAL 133
I Q + E + + + + N+ R + L AL
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL------------KLRQAL 144
Query: 134 YCNHYAPGKRVVCVQGDSAFGFSGMELETLVRYRL 168
P K V+ + G G + + L+ + Y++
Sbjct: 145 L--ELRPAKNVL-IDGVLGSGKTWVALDVCLSYKV 176
>3b1s_A Flagellar biosynthetic protein FLHB; type III secretion system,
protein transport, MEMB protein; 2.55A {Aquifex
aeolicus}
Length = 52
Score = 27.6 bits (62), Expect = 0.47
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 11 KEEEK--EGDEEVKRVGARRRIRMRDLIQR 38
KEE K EG EVK +R + RMR+L +
Sbjct: 11 KEEYKQLEGHPEVK---SRIKARMRELAKS 37
>3onp_A TRNA/RRNA methyltransferase (SPOU); structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics, MCSG; 1.90A {Rhodobacter sphaeroides}
Length = 249
Score = 27.5 bits (62), Expect = 1.9
Identities = 4/38 (10%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 31 RMRDLIQRAKVEEGEMKVGGNMRGVDSAVEKMIQDESV 68
+R++ R + +++ + G+ + ++ E++
Sbjct: 212 NLRNMWARLPLTRADVQT---LHGMLRQIAWKLKQENL 246
>3ilk_A Uncharacterized tRNA/RRNA methyltransferase HI038; APC63004,
methylase family protein, haemophilus influenzae R
structural genomics; 2.01A {Haemophilus influenzae}
Length = 244
Score = 27.5 bits (62), Expect = 2.2
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 31 RMRDLIQRAKVEEGEMKVGGNMRGVDSAVEKMIQDE 66
+++ L RAK+E+ E+ + + G+ SAVEK I
Sbjct: 208 KLKRLYYRAKLEKNELNI---LNGMLSAVEKRIDLT 240
>2pjd_A Ribosomal RNA small subunit methyltransferase C; gene duplication,
RNA modification, SAM binding; 2.10A {Escherichia coli}
Length = 343
Score = 27.0 bits (60), Expect = 3.4
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 7/55 (12%)
Query: 94 ANTMDIGRSLLLNNLPRHRLDAGTFGTMGVGLGF-ALAAALYCNHYAPGKRVVCV 147
+ +D+G LLL+ L H G +G G G ++A A + P R+
Sbjct: 178 RDGLDVGSQLLLSTLTPHT--KGKVLDVGCGAGVLSVAFARHS----PKIRLTLC 226
>3pc3_A CG1753, isoform A; CBS, synthase, PLP, heme, aminoacrylate, lyase;
HET: HEM P1T; 1.55A {Drosophila melanogaster} PDB:
3pc2_A* 3pc4_A*
Length = 527
Score = 26.5 bits (59), Expect = 4.9
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 126 GFALAAAL-YCNHYAPGKRVVCVQGDS 151
G A+ AAL + G+R V + D
Sbjct: 325 GGAMHAALEHARKLKKGQRCVVILPDG 351
>1jbq_A B, cystathionine beta-synthase, serine sulfhydrase; fold type II of
PLP enzymes, lyase; HET: HEM PLP; 2.60A {Homo sapiens}
SCOP: c.79.1.1 PDB: 1m54_A*
Length = 435
Score = 26.2 bits (58), Expect = 7.7
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 1/27 (3%)
Query: 126 GFALAAAL-YCNHYAPGKRVVCVQGDS 151
G +A A+ G+R V + DS
Sbjct: 373 GSTVAVAVKAAQELQEGQRCVVILPDS 399
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 0.139 0.411
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: 2,887,028
Number of extensions: 174866
Number of successful extensions: 521
Number of sequences better than 10.0: 1
Number of HSP's gapped: 489
Number of HSP's successfully gapped: 49
Length of query: 177
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 90
Effective length of database: 4,272,666
Effective search space: 384539940
Effective search space used: 384539940
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: 54 (24.4 bits)