RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3720
(190 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 = 42.0 bits (98), Expect = 7e-05
Identities = 33/166 (19%), Positives = 51/166 (30%), Gaps = 70/166 (42%)
Query: 3 PFKTSDFSPYL-PWVP--------GWIDWNAV---VPIGATVIVVFVGLLVVCFAVSRRK 50
PF S L P + +NA +P+ T
Sbjct: 426 PF----HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF------------------ 463
Query: 51 GDGQTRLRGTIMPPFKTSDFSPYLPWV---PGWIDWNAVVPIGATVIVVF-------VGL 100
DG LR S + + P + W AT I+ F +G+
Sbjct: 464 -DGSD-LRV-----LSGSISERIVDCIIRLP--VKWETTTQFKATHILDFGPGGASGLGV 514
Query: 101 LVVCFAVSRRKGDGQTRLRDDIVYNQSMVGGMNTVDKRHINEELGY 146
L R K DG T +R ++ V G T+D +++ G+
Sbjct: 515 L-----THRNK-DG-TGVR--VI-----VAG--TLDINP-DDDYGF 543
Score = 31.6 bits (71), Expect = 0.16
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 9/46 (19%)
Query: 144 LGYIAPPNRKLPPVPGSNYNTCDRIKRVLNFSSEEFEMSVLKRRSI 189
LGY++ + P ++ +VLN EFE L+ I
Sbjct: 65 LGYVS---SLVEPSKVGQFD------QVLNLCLTEFENCYLEGNDI 101
>2yev_A Cytochrome C oxidase polypeptide I+III; electron transport; HET:
FME 5PL HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus
thermophilus}
Length = 791
Score = 32.1 bits (73), Expect = 0.10
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 12 YLPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKG 51
Y + GW + N + IGA ++ + + + S R G
Sbjct: 452 YNADIAGWPELNLLSTIGAYILGLGGLVWIYTMWKSLRSG 491
Score = 32.1 bits (73), Expect = 0.10
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 73 YLPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKG 112
Y + GW + N + IGA ++ + + + S R G
Sbjct: 452 YNADIAGWPELNLLSTIGAYILGLGGLVWIYTMWKSLRSG 491
>1fft_A Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.24.1.1
Length = 663
Score = 31.2 bits (71), Expect = 0.20
Identities = 12/44 (27%), Positives = 18/44 (40%)
Query: 78 PGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKGDGQTRLRDD 121
P + + GA +I + + LV+ VS R D L D
Sbjct: 489 PQFHTMLMIAASGAVLIALGILCLVIQMYVSIRDRDQNRDLTGD 532
Score = 29.6 bits (67), Expect = 0.67
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 17 PGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKGD 52
P + + GA +I + + LV+ VS R D
Sbjct: 489 PQFHTMLMIAASGAVLIALGILCLVIQMYVSIRDRD 524
>3s8f_A Cytochrome C oxidase subunit 1; complex IV, respiratory chain,
lipid cubic phase, monoolein, peroxide, electron
transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus
thermophilus} PDB: 3s8g_A* 1xme_A* 3qjq_A* 3qjr_A*
3qju_A* 3qjv_A* 4esl_A* 3qjs_A* 2qpd_A* 3bvd_A* 2qpe_A*
3qjt_A* 1ehk_A* 3eh5_A* 3eh3_A* 3eh4_A*
Length = 569
Score = 30.9 bits (70), Expect = 0.29
Identities = 12/97 (12%), Positives = 24/97 (24%), Gaps = 15/97 (15%)
Query: 9 FSPYLPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKG-------DGQTRLRGTI 61
+ P + V++V + L + + I
Sbjct: 460 IAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVLLSRERKPELAEAPLPFAEVI 519
Query: 62 MPPFKTSDFSPYLPWVPGWIDWNAVVPIGATVIVVFV 98
P + + + W AV A ++VV
Sbjct: 520 SGP----EDRRLVLAMDRIGFWFAV----AAILVVLA 548
Score = 30.1 bits (68), Expect = 0.41
Identities = 4/43 (9%), Positives = 10/43 (23%)
Query: 70 FSPYLPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKG 112
+ P + V++V + L +
Sbjct: 460 IAQVPDAYPHAAVPMVFNVLAGIVLLVALLLFIYGLFSVLLSR 502
>2wy3_A MHC class I polypeptide-related sequence B; immune system-viral
protein complex, immune response, innate immunity,
structural mimicry; HET: NAG PEU; 1.80A {Homo sapiens}
PDB: 1je6_A 1hyr_C 1b3j_A*
Length = 319
Score = 29.6 bits (67), Expect = 0.62
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 13 LPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKGDG 53
V P + + FV ++++C ++K
Sbjct: 275 SGKVLVLQSQRTDFPYVSAAMPCFVIIIILCVPCCKKKTSA 315
Score = 29.6 bits (67), Expect = 0.62
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 74 LPWVPGWIDWNAVVPIGATVIVVFVGLLVVCFAVSRRKGDG 114
V P + + FV ++++C ++K
Sbjct: 275 SGKVLVLQSQRTDFPYVSAAMPCFVIIIILCVPCCKKKTSA 315
>2g3v_A CAG pathogenicity island protein 13; pathogenicity island, type IV
secretion system, unknown function; 2.30A {Helicobacter
pylori}
Length = 208
Score = 27.3 bits (60), Expect = 2.7
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 42 VCFAVSRRKGDGQTRLRGTIMPPFK 66
+ F +S R+ D Q L GT +P K
Sbjct: 130 IMFKMSIREMDSQIELYGTKLPLLK 154
>3n0x_A Possible substrate binding protein of ABC transpo system; receptor
family ligand binding region, structural genomics; HET:
MSE; 1.50A {Rhodopseudomonas palustris} PDB: 3nnd_B
Length = 374
Score = 27.3 bits (61), Expect = 2.9
Identities = 8/41 (19%), Positives = 14/41 (34%), Gaps = 3/41 (7%)
Query: 59 GTIMPPFKTSDFSPYLPWVPGWIDWNAVVPIGATVIVVFVG 99
P T+DF+ + D P + V++ G
Sbjct: 174 TEEYVPTTTTDFTAVGQRL---FDALKDKPGKKIIWVIWAG 211
Score = 26.2 bits (58), Expect = 7.6
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 2 PPFKTSDFSPYLPWVPGWIDWNAVVPIGATVIVVFVG 38
P T+DF+ + D P + V++ G
Sbjct: 178 VPTTTTDFTAVGQRL---FDALKDKPGKKIIWVIWAG 211
>3i09_A Periplasmic branched-chain amino acid-binding Pro; type I
periplasmic binding protein, structural genomics, JOI
for structural genomics; HET: MSE CIT; 1.80A
{Burkholderia mallei}
Length = 375
Score = 26.2 bits (58), Expect = 8.2
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 59 GTIMPPFKTSDFSPYL 74
G + P SDFS +L
Sbjct: 173 GEVRHPLSASDFSSFL 188
>3sdb_A Glutamine-dependent NAD(+) synthetase; glutamine-amidotransferase,
glutaminase, glutamine-dependent synthetase, ligase;
2.00A {Mycobacterium tuberculosis} PDB: 3seq_A* 3sez_A*
3szg_A* 3dla_A* 3syt_A*
Length = 680
Score = 25.9 bits (57), Expect = 9.7
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 9/46 (19%)
Query: 35 VFVGL---------LVVCFAVSRRKGDGQTRLRGTIMPPFKTSDFS 71
V +G+ L+V R+G ++ + +P F T + +
Sbjct: 364 VVIGVSGGLDSTHALIVATHAMDREGRPRSDILAFALPGFATGEHT 409
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
0.324 0.141 0.460
Gapped
Lambda K H
0.267 0.0547 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,213,611
Number of extensions: 191624
Number of successful extensions: 313
Number of sequences better than 10.0: 1
Number of HSP's gapped: 307
Number of HSP's successfully gapped: 23
Length of query: 190
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 102
Effective length of database: 4,244,745
Effective search space: 432963990
Effective search space used: 432963990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.0 bits)