RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026229
(241 letters)
>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 = 38.5 bits (89), Expect = 0.001
Identities = 36/220 (16%), Positives = 64/220 (29%), Gaps = 69/220 (31%)
Query: 37 SALAQDL-----------YHFEITSQV---PEGLTRHVT--SSKKAQANW----YRKLSE 76
S AQD+ Y F I V P LT H K+ + N+ + + +
Sbjct: 1639 SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVD 1698
Query: 77 AWREAKPPPTTAEEAARLVI--------------Q----TLSRHKKADVEGLLAFYGLPL 118
+ + E + Q + KA E L + +P
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLME---KAAFEDLKSKGLIPA 1755
Query: 119 P-----HTLIPVS----TAEPTTLPAGVDARAIPDGDTITV------YVSAADPRESACV 163
H S A L + A + + V + A PR+
Sbjct: 1756 DATFAGH-----SLGEYAA----LASL--ADVMSIESLVEVVFYRGMTMQVAVPRDELG- 1803
Query: 164 PGDVQMAAVRRSKARAERNYEQADALHQKIINA-GYRLAI 202
+ M A+ + A + E + +++ G+ + I
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI 1843
Score = 37.3 bits (86), Expect = 0.004
Identities = 36/181 (19%), Positives = 61/181 (33%), Gaps = 60/181 (33%)
Query: 15 PLTEEDSGSL--GP-HGVSAATVGVSALAQDLYHFEIT---SQVPEGLTRH-VTSSKKAQ 67
P ++ SL G + V VS Q LY +T ++ P GL + + S+
Sbjct: 361 PAGKQVEISLVNGAKNLV------VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE--- 411
Query: 68 ANWYRKLSEAWREAKPPPTTA-------EEAARLVIQTLSRHKKADVEGLLAFYGLPLPH 120
RKL + R P + A+ L+ + L ++ ++F +
Sbjct: 412 ----RKLKFSNRFL---PVASPFHSHLLVPASDLINKDLVKNN-------VSFNAKDI-- 455
Query: 121 TLIPV-STAEPTTLPAGVDARAIPDG------DTIT---VY-VSAADPRESACV---PGD 166
IPV T + G D R + D I V + + + + PG
Sbjct: 456 -QIPVYDTFD------GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGG 508
Query: 167 V 167
Sbjct: 509 A 509
>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 = 36.0 bits (82), Expect = 0.010
Identities = 30/219 (13%), Positives = 56/219 (25%), Gaps = 77/219 (35%)
Query: 40 AQDLYHFEITSQVPEGL--TRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQ 97
A+ F ++ ++ L TR + A +S + T +E L+++
Sbjct: 256 AKAWNAFNLSCKI---LLTTRFKQVTDFLSAATTTHISL---DHHSMTLTPDEVKSLLLK 309
Query: 98 TLSRHKKADVEGL--LAFYGLPLPHTLIP--------------------VSTA------- 128
L + L P ++I ++T
Sbjct: 310 YLD----CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 129 -EPTTL----------PAGVDARAIPDGDTITVYVSAADPRESACVPGDVQMAAVRRS-- 175
EP P IP +++ + V + S
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAH---IPT-ILLSLIWFDVIKSD----VMVVVNKLHKYSLV 417
Query: 176 -KARAERNY-------------EQADALHQKIINAGYRL 200
K E E ALH+ I++ Y +
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDH-YNI 455
>3gdo_A Uncharacterized oxidoreductase YVAA; structural genomics, putative
oxidoreductase YVAA, oxidoredu PSI-2, protein structure
initiative; 2.03A {Bacillus subtilis subsp} PDB: 3gfg_A
Length = 358
Score = 30.0 bits (68), Expect = 0.60
Identities = 17/66 (25%), Positives = 26/66 (39%)
Query: 28 GVSAATVGVSALAQDLYHFEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTT 87
G A + Y T + + T + S + +YRK++E+ RE P T
Sbjct: 263 GRKPEDDSWGADVPEFYGKLTTIRGSDKKTETIPSVNGSYLTYYRKIAESIREGAALPVT 322
Query: 88 AEEAAR 93
AEE
Sbjct: 323 AEEGIN 328
>3fhl_A Putative oxidoreductase; NAD-binding domain, PSI-2, NYSGXRC,
structur genomics, protein structure initiative; 1.93A
{Bacteroides fragilis nctc 9343}
Length = 362
Score = 29.2 bits (66), Expect = 1.1
Identities = 8/67 (11%), Positives = 19/67 (28%)
Query: 27 HGVSAATVGVSALAQDLYHFEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPT 86
G ++ + T + + R +Y+ + E +P T
Sbjct: 267 AGEIPERPNWGEESEQEWGLLHTEINGKEICRKYPGIAGNYGGFYQNIYEHLCLGQPLET 326
Query: 87 TAEEAAR 93
A++
Sbjct: 327 HAQDILN 333
>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, LYME
disease; HET: AMP; 2.55A {Borrelia burgdorferi}
Length = 501
Score = 29.5 bits (67), Expect = 1.2
Identities = 8/43 (18%), Positives = 19/43 (44%)
Query: 158 RESACVPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRL 200
+ +++ R A+ E+N+++AD + G+ L
Sbjct: 447 NHDVVIDENMKALIEERRIAKCEKNFKRADEIRDFFAKKGFVL 489
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 29.0 bits (66), Expect = 1.3
Identities = 7/27 (25%), Positives = 19/27 (70%)
Query: 174 RSKARAERNYEQADALHQKIINAGYRL 200
R++ARA+++++ AD + ++ + G +
Sbjct: 424 RNEARAKKDWKTADQIRDQLTDLGVAI 450
>3er6_A Putative transcriptional regulator protein; structural genomics,
unknown function, DNA-binding, transcription regulation,
PSI-2; 1.90A {Vibrio parahaemolyticus}
Length = 209
Score = 28.3 bits (64), Expect = 2.1
Identities = 7/58 (12%), Positives = 18/58 (31%), Gaps = 1/58 (1%)
Query: 124 PVSTAEPTTLPAGVDARAIPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAER 181
P+ ++ ++ + + + S DP ES +R + +
Sbjct: 54 PLIGRGGISVQPTAQWQSFDFTNILII-GSIGDPLESLDKIDPALFDWIRELHLKGSK 110
>3kcp_A Cellulosomal-scaffolding protein A; dockerin, X-module,
carbohydrate metabolism, cell WALL
biogenesis/degradation; 1.94A {Clostridium thermocellum
atcc 27405} PDB: 3p0d_C 2b59_B
Length = 321
Score = 28.1 bits (61), Expect = 2.3
Identities = 7/32 (21%), Positives = 12/32 (37%)
Query: 125 VSTAEPTTLPAGVDARAIPDGDTITVYVSAAD 156
+ T P L + GDT+ + V+
Sbjct: 1 MPTITPNKLTLKIGRAEGRPGDTVEIPVNLYG 32
>3e18_A Oxidoreductase; dehydrogenase, NAD-binding, structural genom
protein structure initiative, PSI, NEW YORK structural
GENO research consortium; HET: NAD; 1.95A {Listeria
innocua}
Length = 359
Score = 28.1 bits (63), Expect = 2.4
Identities = 8/56 (14%), Positives = 16/56 (28%)
Query: 40 AQDLYHFEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLV 95
Q L T + + K ++Y + P EE +++
Sbjct: 277 GQGLTKTMAPPSEEATNTLSLPAPAKLAPSFYNNFVDVLNNTSEPIVQNEEVYQVL 332
>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine,
E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1
c.26.1.1 PDB: 1li7_A 1u0b_B
Length = 461
Score = 28.3 bits (64), Expect = 2.4
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 174 RSKARAERNYEQADALHQKIINAGYRL 200
R AR +++ ADA ++ G L
Sbjct: 423 RLDARKAKDWAAADAARDRLNEMGIVL 449
>2im9_A Hypothetical protein; structural genomics, PSI-2, protein ST
initiative, NEW YORK SGX research center for structural
GEN nysgxrc; 1.67A {Legionella pneumophila subsp} SCOP:
d.3.1.13
Length = 333
Score = 28.0 bits (61), Expect = 2.6
Identities = 18/124 (14%), Positives = 33/124 (26%), Gaps = 13/124 (10%)
Query: 47 EITSQVPEGLTRHVTSSKKAQAN---WYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHK 103
+IT + + V A N WY + + +E + ++ +
Sbjct: 153 DITFSIRNEKKQPVALYANALINKPQWYNHKTIDTIRLQKQDKNEQEKRLVELKAKGK-- 210
Query: 104 KADVEGLLAFYGLPLPHTLIPVSTAEPTTLPAGVDARAIPDGDTITVYVSAADPRESACV 163
IP + P IP+G I + D R+
Sbjct: 211 --------TLETSLSNVPYIPFTALFSENKPNLHLFSQIPNGAVIEIIRPNWDLRQQIGT 262
Query: 164 PGDV 167
D+
Sbjct: 263 ELDI 266
>3f4l_A Putative oxidoreductase YHHX; structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; 2.00A {Escherichia coli k-12}
Length = 345
Score = 28.1 bits (63), Expect = 2.6
Identities = 5/46 (10%), Positives = 10/46 (21%), Gaps = 1/46 (2%)
Query: 54 EGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQTL 99
+ + Y L + P E ++ L
Sbjct: 285 VTVREEMKPEMGDYGRVYDALYQTITHGAPNYVKESE-VLTNLEIL 329
>3fry_A Probable copper-exporting P-type ATPase A; transport protein, metal
binding domain, domain SWAP, ATP-BI cell membrane,
copper transport; HET: CIT; 2.00A {Archaeoglobus
fulgidus}
Length = 73
Score = 25.8 bits (57), Expect = 3.8
Identities = 9/43 (20%), Positives = 17/43 (39%)
Query: 166 DVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLGDKS 208
++ V ++A N E D + + AGY+ + S
Sbjct: 31 GAKVEKVDLNEAVVAGNKEDVDKYIKAVEAAGYQAKLRSSAWS 73
>1itz_A Transketolase; calvin cycle, cofactor, thiamine pyrophosphate,
plant, transferase; HET: TPP; 2.30A {Zea mays} SCOP:
c.36.1.6 c.36.1.10 c.48.1.1
Length = 675
Score = 27.4 bits (62), Expect = 4.8
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 6/49 (12%)
Query: 46 FEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARL 94
F + V +RH +A+W K + + ++AA L
Sbjct: 298 FFVPEDVKSHWSRHTPEGAALEADWNAKF-AEYEKKYA-----DDAATL 340
>3pub_A 30KDA protein; beta-trefoil fold, haemolymph, unknown function;
1.91A {Bombyx mori}
Length = 251
Score = 27.0 bits (59), Expect = 4.9
Identities = 9/47 (19%), Positives = 18/47 (38%)
Query: 192 KIINAGYRLAIHLGDKSSKQRGSSSTKVSNSTKRHRCTREFNAIWER 238
K++ LA+ L + G + + + +F A+WE
Sbjct: 92 KLMYKRDGLALTLSNDVHGNDGRLAFGDGKDKTSPKVSWKFIALWEN 138
>3e82_A Putative oxidoreductase; NAD, GFO/IDH/MOCA family, PSI-2, NYSGXRC,
11136F, structural genomics, protein structure
initiative; 2.04A {Klebsiella pneumoniae subsp}
Length = 364
Score = 27.3 bits (61), Expect = 5.0
Identities = 8/53 (15%), Positives = 16/53 (30%), Gaps = 1/53 (1%)
Query: 47 EITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQTL 99
+ + + Q +Y + +A + P E A V+ L
Sbjct: 279 PLVIYDASLQAHAQATPQGDQRQYYMLIRDALKGQIANPVPPVE-ALAVMAVL 330
>3ckc_A SUSD; TPR repeat, carbohydrate binding, starch binding, sugar BIND
protein; HET: MES; 1.50A {Bacteroides thetaiotaomicron}
SCOP: a.118.8.6 PDB: 3ck8_A* 3ck9_A* 3ckb_A* 3ck7_A*
Length = 527
Score = 27.1 bits (60), Expect = 5.4
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 179 AERNYEQADALHQKIINAGYRLA 201
+ +Y +A+ K+I + Y+L
Sbjct: 215 GQTDYAKAEEYASKVIGSAYKLC 237
>3rim_A Transketolase, TK; TPP, transferase; HET: TPP; 2.49A {Mycobacterium
tuberculosis}
Length = 700
Score = 27.1 bits (61), Expect = 5.6
Identities = 12/50 (24%), Positives = 18/50 (36%), Gaps = 6/50 (12%)
Query: 45 HFEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARL 94
F++ V V K+A W + +AW +P E A L
Sbjct: 306 TFQVREDVLTHTRGLVARGKQAHERWQLEF-DAWARREP-----ERKALL 349
>3kux_A Putative oxidoreductase; oxidoreductase family, csgid, structural
genomics, center FO structural genomics of infectious
diseases; HET: MSE; 2.75A {Yersinia pestis}
Length = 352
Score = 26.9 bits (60), Expect = 5.6
Identities = 7/37 (18%), Positives = 14/37 (37%)
Query: 57 TRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAAR 93
+ + + +Y + +A P P A EA +
Sbjct: 292 EKPLLTLPGNYPAYYAGIRDAIWGTAPNPVPATEAIK 328
>2ffi_A 2-pyrone-4,6-dicarboxylic acid hydrolase, putativ; TIM-barrel
protein., structural genomics, PSI, protein struc
initiative; 2.61A {Pseudomonas putida} SCOP: c.1.9.15
Length = 288
Score = 26.8 bits (59), Expect = 6.0
Identities = 5/34 (14%), Positives = 12/34 (35%)
Query: 69 NWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRH 102
+ K+S +R P A + + + +
Sbjct: 193 KVWVKVSGIYRLQGSPEENLAFARQALCALEAHY 226
>1ute_A Protein (II purple acid phosphatase); tartrate resistant acid
phosphatase metalloenzyme, uteroferrin, hydrolase; HET:
NAG; 1.55A {Sus scrofa} SCOP: d.159.1.1 PDB: 1war_A*
2bq8_X 1qfc_A* 1qhw_A*
Length = 313
Score = 26.9 bits (59), Expect = 6.8
Identities = 12/54 (22%), Positives = 17/54 (31%), Gaps = 2/54 (3%)
Query: 153 SAADPRESACVPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLGD 206
+A P GD V + R A A+ + G + LGD
Sbjct: 1 TAPTPILRFVAVGD--WGGVPNAPFHTAREMANAKAIATTVKTLGADFILSLGD 52
>1wr2_A Hypothetical protein PH1789; structural genomics, NPPSFA, national
on protein structural and functional analyses; 2.00A
{Pyrococcus horikoshii}
Length = 238
Score = 26.4 bits (59), Expect = 7.2
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 89 EEAARLVIQTLSRHKK----ADVEGLLAFYGLPLPHTLIPVSTAE 129
EEA R++ + L + + + + +L YGLP+P + T +
Sbjct: 3 EEAVRVIEEVLKQGRTAMVEYEAKQVLKAYGLPVPEEKL-AKTLD 46
>3i23_A Oxidoreductase, GFO/IDH/MOCA family; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; 2.30A {Enterococcus faecalis} PDB:
3fd8_A* 3hnp_A
Length = 349
Score = 26.9 bits (60), Expect = 7.2
Identities = 6/43 (13%), Positives = 16/43 (37%)
Query: 53 PEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLV 95
+ + + + + +Y + E + P T E+A +
Sbjct: 287 GDWIKKQIKTPVGDYGRYYDAVYETLKNGAPQLVTKEQALTNI 329
>1wde_A Probable diphthine synthase; structural genomics, conserved
hypothetical protein, riken S genomics/proteomics
initiative, RSGI, transferase; 2.00A {Aeropyrum pernix}
SCOP: c.90.1.1
Length = 294
Score = 26.6 bits (58), Expect = 8.1
Identities = 12/84 (14%), Positives = 24/84 (28%), Gaps = 5/84 (5%)
Query: 27 HGVSAATVGVSALAQDLYHFEITSQVPEGLTRHVTSS--KKAQANWYRKLSEAWR---EA 81
GVS A Y F T +P S ++ N L +
Sbjct: 118 PGVSGVQAARGATMLSFYRFGGTVTLPGPWRGVTPISVARRIYLNLCAGLHTTALLDVDE 177
Query: 82 KPPPTTAEEAARLVIQTLSRHKKA 105
+ + + L+++ + +
Sbjct: 178 RGVQLSPGQGVSLLLEADREYARE 201
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 8.5
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 64 KKAQANWYRKLSEAWREAKPPPTTAEEA 91
KK W ++ SE + K A++A
Sbjct: 117 KKDLEEWNQRQSEQVEKNKINNRIADKA 144
>1bs0_A Protein (8-amino-7-oxonanoate synthase); PLP-dependent acyl-COA
synthase, biotin biosynthesis, 8-AMIN oxonanoate
synthase; 1.65A {Escherichia coli} SCOP: c.67.1.4 PDB:
2g6w_A* 1dje_A* 1dj9_A*
Length = 384
Score = 26.3 bits (59), Expect = 8.7
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 84 PPTTAEEAARLVIQTLSRHKKADVEGLLA 112
PPT ARL + + H+ D++ LL
Sbjct: 350 PPTVPAGTARLRLTLTAAHEMQDIDRLLE 378
>3a2b_A Serine palmitoyltransferase; vitamin B6-dependent enzyme fold type
I, acyltransferase, PY phosphate; HET: PLP; 2.30A
{Sphingobacterium multivorum}
Length = 398
Score = 26.4 bits (59), Expect = 9.3
Identities = 3/29 (10%), Positives = 10/29 (34%)
Query: 84 PPTTAEEAARLVIQTLSRHKKADVEGLLA 112
P E + + ++ H ++ +
Sbjct: 355 SPAVPAEESLIRFSLMATHTYDQIDEAIE 383
>1fc4_A 2-amino-3-ketobutyrate conenzyme A ligase; 2-amino-3-ketobutyrate
COA ligase, pyridoxal phosphate, COEN transferase,
structural genomics; HET: PLP; 2.00A {Escherichia coli}
SCOP: c.67.1.4
Length = 401
Score = 26.4 bits (59), Expect = 9.9
Identities = 5/29 (17%), Positives = 10/29 (34%)
Query: 84 PPTTAEEAARLVIQTLSRHKKADVEGLLA 112
P + AR+ Q + H + +
Sbjct: 360 YPVVPKGQARIRTQMSAAHTPEQITRAVE 388
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
0.314 0.128 0.374
Gapped
Lambda K H
0.267 0.0564 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,608,049
Number of extensions: 210059
Number of successful extensions: 485
Number of sequences better than 10.0: 1
Number of HSP's gapped: 484
Number of HSP's successfully gapped: 36
Length of query: 241
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 150
Effective length of database: 4,160,982
Effective search space: 624147300
Effective search space used: 624147300
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.7 bits)