RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2693
(122 letters)
>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein
complex I, protein TRAN; 2.90A {Saccharomyces
cerevisiae} PDB: 3mv3_A
Length = 325
Score = 111 bits (278), Expect = 5e-31
Identities = 30/94 (31%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 2 EILAKFQIIPVATQARKLLAICNANPTDEHTIDYDEHNPFQICARSYTPIYHGRESEACV 61
E L P A QARK+ ++ +D ID+D + F ICA +Y PIY S +
Sbjct: 232 EFLKIISSGPRAEQARKIKNKADSMASDAIPIDFDPYAKFDICAATYKPIYEDTPSVSDP 291
Query: 62 YCGASYLPKYKGELCAVCTVSVIDTHRNAYGLQI 95
G+ Y+ K ++ + +S I A GL+I
Sbjct: 292 LTGSKYVITEKDKIDRIAMISKIG--APASGLRI 323
>3mkr_B Coatomer subunit alpha; tetratricopeptide repeats (TPR),
beta-hairpin, alpha-solenoi transport protein; 2.60A
{Bos taurus}
Length = 320
Score = 108 bits (272), Expect = 4e-30
Identities = 43/96 (44%), Positives = 58/96 (60%), Gaps = 2/96 (2%)
Query: 2 EILAKFQIIPVATQARKLLAICNANPTDEHTIDYDEHNPFQICARSYTPIYHGRESEACV 61
+L VA Q RK+L+ C NPTD + ++YD HNPF ICA SY PIY G+ E C
Sbjct: 223 RLLELGPKPEVAQQTRKILSACEKNPTDAYQLNYDMHNPFDICAASYRPIYRGKPVEKCP 282
Query: 62 YCGASYLPKYKGELCAVCTVSVIDTHRNAYGLQICA 97
GA Y P++KG++C V TV+ I ++ GL+I
Sbjct: 283 LSGACYSPEFKGQICKVTTVTEIG--KDVIGLRISP 316
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB:
1i6v_D* 2gho_D
Length = 1265
Score = 27.3 bits (61), Expect = 1.5
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 32 TIDYDEHNP-----FQICARSYTPIYHGRESEACVYCGASYLPKYKGELCAVCTVSVIDT 86
TI+Y P F R + PI ++ E C CG +++G++C C V V +
Sbjct: 31 TINYRTLKPERDGLF--DERIFGPI---KDYE-C-ACGKYKRQRFEGKVCERCGVEVTRS 83
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase
holoenzyme, streptolydigin, antibiotic, transcription
regulation; HET: STD; 2.40A {Thermus thermophilus}
SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D*
2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D*
3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D*
1ynn_D* 2auj_D
Length = 1524
Score = 27.4 bits (61), Expect = 1.6
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 32 TIDYDEHNP-----FQICARSYTPIYHGRESEACVYCGASYLPKYKGELCAVCTVSVIDT 86
TI+Y P F R + PI ++ E C CG +++G++C C V V +
Sbjct: 31 TINYRTLKPERDGLF--DERIFGPI---KDYE-C-ACGKYKRQRFEGKVCERCGVEVTKS 83
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS
finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2
b.113.1.1 g.39.1.8
Length = 364
Score = 26.1 bits (57), Expect = 3.4
Identities = 2/26 (7%), Positives = 8/26 (30%)
Query: 54 GRESEACVYCGASYLPKYKGELCAVC 79
G + + ++G+ +
Sbjct: 264 GMPGMSSLQDRHGRTIWFQGDPGPLA 289
>3b34_A Aminopeptidase N; protease, hydrolase, thermolysin, phenylal
membrane, metal-binding, metalloprotease; HET: PHE;
1.30A {Escherichia coli K12} PDB: 2hpt_A* 3b2p_A*
2hpo_A* 3b2x_A* 3b37_A* 3b3b_A* 3ked_A* 3qjx_A 3puu_A
2dq6_A 2dqm_A* 2zxg_A*
Length = 891
Score = 26.0 bits (57), Expect = 3.4
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 3 ILAKFQIIPVATQARKLLAICNANPTDEHTIDYDEH 38
+LA+F +A + + + N N + ++ H
Sbjct: 158 VLARFTTKIIADKIKYPFLLSNGNRVAQGELENGRH 193
>2gtq_A Aminopeptidase N; alanine aminopeptidase, M1 family peptidas PSI-2,
structural genomics, protein structure initiative; 2.05A
{Neisseria meningitidis}
Length = 867
Score = 26.0 bits (57), Expect = 3.7
Identities = 9/38 (23%), Positives = 16/38 (42%)
Query: 1 MEILAKFQIIPVATQARKLLAICNANPTDEHTIDYDEH 38
++++KF VA + R + + N N D H
Sbjct: 131 PDVMSKFTTTIVADKKRYPVLLSNGNKIDGGEFSDGRH 168
>1d8w_A L-rhamnose isomerase; beta-alpha-8-barrels, aldose-ketose
isomerization, hydride shift; 1.60A {Escherichia coli}
SCOP: c.1.15.2 PDB: 1de5_A* 1de6_A*
Length = 426
Score = 25.7 bits (56), Expect = 4.8
Identities = 11/31 (35%), Positives = 13/31 (41%)
Query: 19 LLAICNANPTDEHTIDYDEHNPFQICARSYT 49
L + + H ID E F I A SYT
Sbjct: 215 LDEVISEKLNPAHHIDAVESKLFGIGAESYT 245
>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 = 25.8 bits (56), Expect = 5.0
Identities = 7/42 (16%), Positives = 17/42 (40%), Gaps = 5/42 (11%)
Query: 10 IP-----VATQARKLLAICNANPTDEHTIDYDEHNPFQICAR 46
+P +A+Q ++ PT+ D + P ++ +
Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK 63
>2a35_A Hypothetical protein PA4017; alpha-beta-alpha sandwich, structura
genomics, PSI, protein structure initiative; 1.50A
{Pseudomonas aeruginosa} SCOP: c.2.1.2
Length = 215
Score = 25.4 bits (56), Expect = 5.5
Identities = 7/35 (20%), Positives = 12/35 (34%)
Query: 3 ILAKFQIIPVATQARKLLAICNANPTDEHTIDYDE 37
+ K+ I AR L + ++ DE
Sbjct: 173 LPGKYHGIEACDLARALWRLALEEGKGVRFVESDE 207
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA
polymerase, nucleotidyltransferase, transcription,
transferase; 11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 24.9 bits (55), Expect = 9.9
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 12/60 (20%)
Query: 32 TIDYDEHNP-----FQICARSYTPIYHGRESEACVYCGASYLPKYKGELCAVCTVSVIDT 86
TI+Y P F CAR + P+ ++ E CG K++G +C C V V T
Sbjct: 43 TINYRTFKPERDGLF--CARIFGPV---KDYE--CLCGKYKRLKHRGVICEKCGVEVTQT 95
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 0.134 0.422
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,848,193
Number of extensions: 95172
Number of successful extensions: 197
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 18
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
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 (22.0 bits)
S2: 51 (23.3 bits)