RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10872
(259 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 = 38.1 bits (88), Expect = 0.002
Identities = 37/257 (14%), Positives = 75/257 (29%), Gaps = 91/257 (35%)
Query: 7 ISSSATDGSEERQCRLRKFLHV-----------FAKCPLESNVI---VEH---------- 42
I+ + + S +RK + V + L +++ +E+
Sbjct: 283 IAETDSWESFFVS--VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 43 -KDCSAEPLAALIAKLNGCVSQLEQLPVKVHDLPAG---TGSTTALKFFNTHQLKCHLQR 98
+ + E + + K N + +Q+ + + + +G +L N L++
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL-----TLRK 395
Query: 99 HPSCTSLKQWKGGTVKIDPLARMCNTHQLKCHLQRHPSCTSLKQWKGGTVKIDPLA---- 154
+ + L Q +I P +R + + P+A
Sbjct: 396 AKAPSGLDQS-----RI-P------------FSERKLK---------FSNRFLPVASPFH 428
Query: 155 ---LVQAIERYL--VVRGYARIRDKD---------SGESDEDNSEEDIDDTLAAVVITH- 199
LV A + +V+ KD G SD I + + +I
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG-SDLRVLSGSISERIVDCIIRLP 487
Query: 200 ---------GARHKLQF 207
A H L F
Sbjct: 488 VKWETTTQFKATHILDF 504
>1yqw_Q Periplasmic [NIFE] hydrogenase large subunit; NI-Fe hydrogenase
unready state, oxidoreductase; 1.83A {Desulfovibrio
fructosovorans} PDB: 1yrq_H 3h3x_Q 3cus_Q 3cur_H 1frf_L
Length = 549
Score = 29.8 bits (66), Expect = 1.1
Identities = 14/74 (18%), Positives = 27/74 (36%), Gaps = 5/74 (6%)
Query: 88 NTHQLKCHLQRHPSCTSLKQWKGGTVKIDPLARMCNTHQLKCHLQRHPSCTSLKQWKGGT 147
+ K + H S ++KG +++ PLAR + + P + G
Sbjct: 356 DPKYTKLDDKDHYSWMKAPRYKGKAMEVGPLART-----FIAYAKGQPDFKKVVDMVLGK 410
Query: 148 VKIDPLALVQAIER 161
+ + AL + R
Sbjct: 411 LSVPATALHSTLGR 424
>3st7_A Capsular polysaccharide synthesis enzyme CAP5F; rossmann fold,
cupid domain, short-chain dehydrogenase/reduc NADPH;
2.45A {Staphylococcus aureus} PDB: 2zkl_A 3vhr_A
Length = 369
Score = 28.7 bits (64), Expect = 2.1
Identities = 15/46 (32%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 159 IERYLVVRGYARIRDKDSGESDEDNSEEDIDDTLAAVVI----THG 200
E++LVV G IR + DE D L V I TH
Sbjct: 294 NEKFLVVSGKGVIRFRHVN-DDEIIEYYVSGDKLEVVDIPVGYTHN 338
>3mz2_A Glycerophosphoryl diester phosphodiesterase; structural genomics,
joint center for structural genomics; HET: MSE PE4;
1.55A {Parabacteroides distasonis}
Length = 292
Score = 28.6 bits (64), Expect = 2.2
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 28 VFAKCPLESNVIVEHKDCSAEPLAALIAKLN 58
++ +I++ KD E A LI +
Sbjct: 125 AIRWARGKTILILDKKDVPMERTAQLITDMQ 155
>1zcc_A Glycerophosphodiester phosphodiesterase; NYSGXRC, agrobacterium
tumefaciens STR. C58, structural genomics; 2.50A
{Agrobacterium tumefaciens str} SCOP: c.1.18.3
Length = 248
Score = 27.2 bits (61), Expect = 4.8
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 28 VFAKCPLESNVIVEHKDCSAEPLAALIAKLN 58
+ V +E K C +AAL+ L
Sbjct: 95 YLEHLRGRAGVYIELKYCDPAKVAALVRHLG 125
>3st8_A Bifunctional protein GLMU; acetyltransferase, pyrophosphorylase,
rossmann fold, LEFT-handed-beta-helix, cell shape; HET:
COA GP1 UD1; 1.98A {Mycobacterium tuberculosis} PDB:
3spt_A* 3foq_A 3dk5_A 3d8v_A 3d98_A* 3dj4_A 2qkx_A*
Length = 501
Score = 27.5 bits (62), Expect = 4.9
Identities = 4/13 (30%), Positives = 5/13 (38%)
Query: 39 IVEHKDCSAEPLA 51
IVE D +
Sbjct: 170 IVEQTDATPSQRE 182
>1hm9_A GLMU, UDP-N-acetylglucosamine-1-phosphate uridyltransfe;
acetyltransferase, bifunctional, drug design; HET: ACO
UD1; 1.75A {Streptococcus pneumoniae} SCOP: b.81.1.4
c.68.1.5 PDB: 1hm8_A* 1hm0_A* 4ac3_A* 4aaw_A* 1g97_A*
1g95_A*
Length = 468
Score = 27.5 bits (62), Expect = 5.0
Identities = 5/10 (50%), Positives = 6/10 (60%)
Query: 39 IVEHKDCSAE 48
IVE KD +
Sbjct: 161 IVEQKDATDF 170
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 27.5 bits (60), Expect = 5.6
Identities = 13/119 (10%), Positives = 32/119 (26%), Gaps = 8/119 (6%)
Query: 50 LAALIAKLNGCVSQLEQLPVKVHDLPAGTGSTTALK-FFNTHQLKCHLQRHPSCTSLKQ- 107
L L L + V + D G G T + N + + + +++
Sbjct: 144 LRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKEILSRVNFEEDLILVPGRQAAEMIRRR 203
Query: 108 WKGGTVKIDPLARMCNTHQLKCHLQRHPSCTSLKQWKGGTVKIDPLALVQAIERYLVVR 166
+ + + + + C + + ID ++ +V
Sbjct: 204 ANASGIIVATKDNVRTVDSFLMNYGKGARC------QFKRLFIDEGLMLHTGCVNFLVE 256
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.0 bits (59), Expect = 5.7
Identities = 6/57 (10%), Positives = 21/57 (36%), Gaps = 25/57 (43%)
Query: 139 SLKQWKGGTVKIDPLALVQAIERYLVVRGYARIRDKDSGESDE-----DNSEEDIDD 190
S+++W+ E R+++ D+ + +++D+++
Sbjct: 86 SIRKWR---------------EEQ-----RKRLQELDAASKVMEQEWREKAKKDLEE 122
>4fce_A Bifunctional protein GLMU; GLMU. csgid, niaid, structural genomics,
national institute allergy and infectious diseases; HET:
GP1; 1.96A {Yersinia pseudotuberculosis} PDB: 3fww_A
1hv9_A* 2oi5_A* 2oi6_A* 2oi7_A* 1fxj_A* 1fwy_A*
Length = 459
Score = 27.5 bits (62), Expect = 5.8
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 39 IVEHKDCSAE 48
IVEHKD S
Sbjct: 155 IVEHKDASDA 164
>2v0h_A Bifunctional protein GLMU; cell WALL, magnesium, cell shape,
transferase, peptidoglycan synthesis, associative
mechanism; 1.79A {Haemophilus influenzae} PDB: 2v0i_A*
2v0j_A* 2v0k_A* 2v0l_A* 2vd4_A* 2w0v_A* 2w0w_A* 3twd_A*
Length = 456
Score = 27.1 bits (61), Expect = 5.9
Identities = 7/10 (70%), Positives = 8/10 (80%)
Query: 39 IVEHKDCSAE 48
IVE KD +AE
Sbjct: 152 IVEQKDANAE 161
>3lor_A Thiol-disulfide isomerase and thioredoxins; PSI, MCSG, structural
genomics, midwest CE structural genomics; HET: MSE;
2.20A {Corynebacterium glutamicum}
Length = 160
Score = 25.9 bits (57), Expect = 9.1
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 170 RIRDKDSGESDEDNSEEDIDDTLA 193
RIR G+ D+ + L+
Sbjct: 132 RIRQVQFGQVDDFVLGLLLGSLLS 155
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 26.5 bits (59), Expect = 10.0
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 38 VIVEHKDCSAEPLAALIAKLNGCVSQLEQLPVKVHDLPAGT 78
+ ++ + E LI L + + + LP +
Sbjct: 503 LQIQCRISDEERRGQLIHALAARIQSEFGVTAAIDLLPPHS 543
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
0.318 0.133 0.412
Gapped
Lambda K H
0.267 0.0839 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,961,143
Number of extensions: 233403
Number of successful extensions: 539
Number of sequences better than 10.0: 1
Number of HSP's gapped: 538
Number of HSP's successfully gapped: 18
Length of query: 259
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 167
Effective length of database: 4,133,061
Effective search space: 690221187
Effective search space used: 690221187
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 (21.7 bits)
S2: 56 (25.1 bits)