RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15166
(90 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 = 31.6 bits (71), Expect = 0.025
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 18/63 (28%)
Query: 9 LPISGSDGALYRRQQLEKQAAEYMQQLPAGK-----L---P----ISGSDGALYR-RQQL 55
L IS ++Q++ + LPAGK L +SG +LY L
Sbjct: 339 LSISN-----LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 56 EKQ 58
K
Sbjct: 394 RKA 396
Score = 29.6 bits (66), Expect = 0.11
Identities = 11/78 (14%), Positives = 27/78 (34%), Gaps = 24/78 (30%)
Query: 9 LPISGSDGALYRRQQLEKQAAEYMQQLPAGKLPISGSDGALYRRQQLEKQVPLHD----- 63
LP++ + + L + + L + + D + Q+P++D
Sbjct: 421 LPVA----SPFHSHLLVPASDLINKDLVKNNVSFNAKD--I--------QIPVYDTFDGS 466
Query: 64 ----LNANLCHNLTADEI 77
L+ ++ + D I
Sbjct: 467 DLRVLSGSISERI-VDCI 483
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.9 bits (62), Expect = 0.42
Identities = 12/63 (19%), Positives = 21/63 (33%), Gaps = 4/63 (6%)
Query: 11 ISGSDGALY--RRQQLEKQAAEYMQQLPAGKLPISGSDGALYRRQQLEKQVPLHDLNANL 68
I+ Y + EK A ++ + A Y + E+ V L D A +
Sbjct: 1466 ITEDRYNEYVAKVSAREKSAYKFFHNGMIYNKLFVSKEHAPYTDEL-EEDVYL-DPLARV 1523
Query: 69 CHN 71
+
Sbjct: 1524 SKD 1526
>2ex2_A Penicillin-binding protein 4; cephem, penem, D-Ala
alanine-carboxypeptidase,
D-alanyl-D-alanine-endopeptidase, hydrolase; 1.55A
{Escherichia coli} SCOP: e.3.1.3 PDB: 2ex6_A* 2ex8_A*
2ex9_A* 2exa_A* 2exb_A*
Length = 458
Score = 27.4 bits (60), Expect = 0.67
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 9 LPISGSDGALYRRQQLEKQAAE 30
LP++G DG+L R L + +
Sbjct: 371 LPLAGYDGSLQYRAGLHQAGVD 392
Score = 25.5 bits (55), Expect = 2.6
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 30 EYMQQLPAGK-----LPISGSDGALYRRQQLEK 57
+Y+ Q LP++G DG+L R L +
Sbjct: 356 QYIAQHDNELNFISMLPLAGYDGSLQYRAGLHQ 388
>3a3d_A PBP4, penicillin-binding protein 4; DACB, hydrolase; 1.60A
{Haemophilus influenzae} PDB: 3a3e_A* 3a3f_A* 3a3i_A*
Length = 453
Score = 27.0 bits (59), Expect = 0.88
Identities = 7/22 (31%), Positives = 9/22 (40%)
Query: 9 LPISGSDGALYRRQQLEKQAAE 30
PI+G DG + R L
Sbjct: 367 FPIAGVDGTISGRGGLISPPLV 388
Score = 25.5 bits (55), Expect = 3.3
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 5/34 (14%)
Query: 30 EYMQQLPAGK-----LPISGSDGALYRRQQLEKQ 58
EY+ + PI+G DG + R L
Sbjct: 352 EYIAKNEDKLHLMETFPIAGVDGTISGRGGLISP 385
>3r3j_A Glutamate dehydrogenase; rossman fold, oxidoreductase, apicoplast;
3.10A {Plasmodium falciparum}
Length = 456
Score = 26.8 bits (60), Expect = 0.91
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 11/42 (26%)
Query: 11 ISGSDG--ALYRRQQLEKQAAEYMQQLPAGKLPISGSDGALY 50
+SGS G A Y E + + A L +S S+G +
Sbjct: 244 VSGS-GNVAQY--------LVEKLIEKGAIVLTMSDSNGYIL 276
>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 = 26.1 bits (56), Expect = 1.3
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 15/44 (34%)
Query: 25 EKQAAEYMQQLPAGKLPISGSDGALYRRQQLEKQVPLHDLNANL 68
EKQA + +Q L + D A P + A +
Sbjct: 18 EKQALKKLQ----ASLKLYADDSA-----------PALAIKATM 46
>1bgv_A Glutamate dehydrogenase; oxidoreductase; HET: GLU; 1.90A
{Clostridium symbiosum} SCOP: c.2.1.7 c.58.1.1 PDB:
1hrd_A 1k89_A 1aup_A 2yfh_A
Length = 449
Score = 26.4 bits (59), Expect = 1.3
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 11/42 (26%)
Query: 11 ISGSDG--ALYRRQQLEKQAAEYMQQLPAGKLPISGSDGALY 50
++G G A AA+ + +L A + +SG DG +Y
Sbjct: 235 LAGF-GNVAWG--------AAKKLAELGAKAVTLSGPDGYIY 267
>2yfg_A NADP-specific glutamate dehydrogenase; oxidoreductase; 2.50A
{Escherichia coli} PDB: 3sbo_A 2yfg_E
Length = 447
Score = 24.9 bits (55), Expect = 4.8
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 28 AAEYMQQLPAGKLPISGSDGALY 50
A E + A + S S G +
Sbjct: 247 AIEKAMEFGARVITASDSSGTVV 269
>2bma_A Glutamate dehydrogenase (NADP+); malaria, drug design, analysis,
oligomer organization, oxidoreductase; 2.7A {Plasmodium
falciparum}
Length = 470
Score = 25.0 bits (55), Expect = 4.8
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 11/42 (26%)
Query: 11 ISGSDG--ALYRRQQLEKQAAEYMQQLPAGKLPISGSDGALY 50
+SGS G ALY + + L L +S S+G +Y
Sbjct: 257 VSGS-GNVALY--------CVQKLLHLNVKVLTLSDSNGYVY 289
>3kzh_A Probable sugar kinase; NYSGXRC, PSI-II, protein structure
initiative, modified lysin, structural genomics; HET:
BGC; 2.45A {Clostridium perfringens}
Length = 328
Score = 24.9 bits (55), Expect = 4.9
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 26 KQAAEYMQQLPAGKLPIS-GSDGALYRRQQLEKQVPLHDLNA 66
+A+ Y L K+ IS +DG Y ++ +++
Sbjct: 208 IKASNYFLGLGIKKVFISLDADGIFYNDGVSCGKIKATEVDV 249
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
0.317 0.132 0.383
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,338,669
Number of extensions: 64806
Number of successful extensions: 202
Number of sequences better than 10.0: 1
Number of HSP's gapped: 202
Number of HSP's successfully gapped: 14
Length of query: 90
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 33
Effective length of database: 5,110,296
Effective search space: 168639768
Effective search space used: 168639768
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 (21.6 bits)
S2: 51 (23.3 bits)