RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6915
(127 letters)
>1v0a_A Endoglucanase H; carbohydrate binding module, cellulosome,
cellulose degradation, hydrolase, glycosidase; 1.98A
{Clostridium thermocellum} SCOP: b.18.1.30
Length = 178
Score = 45.2 bits (106), Expect = 5e-07
Identities = 20/86 (23%), Positives = 33/86 (38%), Gaps = 4/86 (4%)
Query: 10 RGDGRSYMLNLHTPGDFDVTWGDMFTYALYTRGGPYWQITKIPFSKFFLQSKGR--IQDI 67
G + V G+ + Y++ W+ +IPFS F + + QD+
Sbjct: 79 DGSANEIRFMIAEKSINGVGDGEHWVYSITPDSS--WKTIEIPFSSFRRRLDYQPPGQDM 136
Query: 68 QNPLDTDRISSIGLSLVDQNNGPFQL 93
LD D I SI + +G F +
Sbjct: 137 SGTLDLDNIDSIHFMYANNKSGKFVV 162
>1cwv_A Invasin; integrin-binding protein, INV gene, structural protein;
HET: CIT; 2.30A {Yersinia pseudotuberculosis} SCOP:
b.1.14.1 b.1.14.1 b.1.14.1 b.1.14.1 d.169.1.3
Length = 492
Score = 26.9 bits (58), Expect = 2.5
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 30 WGDMFTYALYTRGGPYW 46
WG + Y+ + G YW
Sbjct: 442 WGSLTAYSSDWQSGEYW 458
>3l48_A Outer membrane usher protein PAPC; IG fold, greek KEY, cell outer
membrane, fimbrium, transmembrane, transport, transport
protein; 2.10A {Escherichia coli} PDB: 2kt6_A
Length = 94
Score = 24.8 bits (54), Expect = 4.9
Identities = 3/21 (14%), Positives = 8/21 (38%)
Query: 12 DGRSYMLNLHTPGDFDVTWGD 32
+G +++ + V W
Sbjct: 42 EGLAWLSGVTPGETLSVNWDG 62
>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 = 25.4 bits (55), Expect = 7.1
Identities = 17/91 (18%), Positives = 23/91 (25%), Gaps = 43/91 (47%)
Query: 11 GDGR-SYML-----------------NLHTPGDFDVTWG-----DMF-----TYALY--- 39
+G S ML N H P V +LY
Sbjct: 331 NEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN 390
Query: 40 -----TRGGPYWQITKIPFSK----F---FL 58
+ ++IPFS+ F FL
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
>3m7a_A Uncharacterized protein; structural genomics, unknown function,
joint center for structural genomics, JCSG; HET: MSE;
1.22A {Novosphingobium aromaticivorans}
Length = 140
Score = 24.9 bits (54), Expect = 7.9
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 3/50 (6%)
Query: 34 FTYALYTRGGPYWQITKIPFSKFFLQSKGRIQDIQN---PLDTDRISSIG 80
F + + T IP F+ R+ +I P D + + G
Sbjct: 65 FLRNPPDMATFWMRNTVIPLDIIFVGLDRRVMNIAANAVPYDETPLPAAG 114
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity,
CRP, CLP, C-DI-GMP receptor, quorum SENS binding,
transcription; 2.30A {Xanthomonas campestris PV}
Length = 230
Score = 25.0 bits (55), Expect = 8.3
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 6/34 (17%)
Query: 12 DGRSYMLNLHTPGDFDVTWGDMFTYALYTRGGPY 45
D R +L G+F G+M L+
Sbjct: 71 DDRELVLGYFGSGEF---VGEM---GLFIESDTR 98
>1zzo_A RV1677; thioredoxin fold, structural genomics, PSI, protein
structure initiative, TB structural genomics consortium,
TBSGC; 1.60A {Mycobacterium tuberculosis} SCOP:
c.47.1.10 PDB: 3ios_A
Length = 136
Score = 24.6 bits (54), Expect = 8.5
Identities = 6/41 (14%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 46 WQITKIPFSKFFLQSKGRIQDIQNPLDTDRISSIGLSLVDQ 86
+ +T+ P F+ G + ++ + D ++ +L +
Sbjct: 97 FGVTQQPAY-AFVDPHGNVDVVRGRMSQDELTRRVTALTSR 136
>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding,
DNA-binding nucleotide-binding, transcription,
transcription regulation; HET: CMP; 1.66A {Escherichia
coli}
Length = 260
Score = 25.0 bits (55), Expect = 8.6
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 6/34 (17%)
Query: 12 DGRSYMLNLHTPGDFDVTWGDMFTYALYTRGGPY 45
+G+ +L+ GDF G++ L+ G
Sbjct: 106 EGKEMILSYLNQGDFI---GEL---GLFEEGQER 133
>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane,
nucleotide-binding, translation; 2.80A {Escherichia
coli} PDB: 3deg_C*
Length = 599
Score = 25.1 bits (56), Expect = 8.7
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 7/26 (26%)
Query: 12 DGRSYMLNL-HTPGDFDVTWGDMFTY 36
DG +Y LN TPG D F+Y
Sbjct: 67 DGETYQLNFIDTPGHVD------FSY 86
>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like
domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus}
PDB: 2ywf_A* 2ywg_A* 2ywh_A*
Length = 600
Score = 25.1 bits (56), Expect = 9.1
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 7/26 (26%)
Query: 12 DGRSYMLNL-HTPGDFDVTWGDMFTY 36
DG +Y L+L TPG D F+Y
Sbjct: 69 DGNTYKLHLIDTPGHVD------FSY 88
>2xet_A CAF1A usher, F1 capsule-anchoring protein; transport protein;
1.60A {Yersinia pestis}
Length = 89
Score = 24.1 bits (52), Expect = 9.6
Identities = 5/21 (23%), Positives = 7/21 (33%)
Query: 12 DGRSYMLNLHTPGDFDVTWGD 32
+ Y+ L V WG
Sbjct: 37 NSGVYLTGLPKKSKILVKWGR 57
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
0.322 0.143 0.458
Gapped
Lambda K H
0.267 0.0504 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,023,681
Number of extensions: 108031
Number of successful extensions: 225
Number of sequences better than 10.0: 1
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 17
Length of query: 127
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 44
Effective length of database: 4,384,350
Effective search space: 192911400
Effective search space used: 192911400
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 (21.9 bits)
S2: 51 (24.0 bits)