RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9115
(96 letters)
>1eh1_A Ribosome recycling factor; translation, hinge variability; 2.60A
{Thermus thermophilus} SCOP: d.67.3.1 PDB: 2qbe_6 2qbg_6
2qbi_6* 2qbk_6* 2v46_Y* 2v48_Y* 2z4l_6* 2z4n_6* 3j0d_J
3j0e_G
Length = 185
Score = 32.1 bits (74), Expect = 0.011
Identities = 12/54 (22%), Positives = 26/54 (48%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R+ L + + + + IR+I+ + +K K LS+D+ + +
Sbjct: 107 TEERRKDLVRAVRQYAEEGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAE 160
>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia coli}
SCOP: d.67.3.1 PDB: 1ek8_A* 1zn0_A 1zn1_A 2rdo_8
Length = 185
Score = 32.1 bits (74), Expect = 0.011
Identities = 13/54 (24%), Positives = 26/54 (48%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R+ L+K + + + +R++ VK K + +S+DD R +
Sbjct: 106 TEERRKDLTKIVRGEAEQARVAVRNVGRDANDKVKALLKDKEISEDDDRRSQDD 159
>4gfq_A Ribosome-recycling factor; structural genomics, niaid, national
institute of allergy AN infectious diseases; 2.65A
{Bacillus anthracis}
Length = 209
Score = 32.2 bits (74), Expect = 0.013
Identities = 15/54 (27%), Positives = 28/54 (51%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R L K K + K +R+++ +K EK+ +++DD+R +E
Sbjct: 130 TEERRRDLVKVVKKYAEEAKVAVRNVRRDGNDDLKKLEKAGEITEDDLRGYTED 183
>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
parahaemolyticus} SCOP: d.67.3.1 PDB: 3r8n_Y
Length = 185
Score = 32.1 bits (74), Expect = 0.014
Identities = 13/54 (24%), Positives = 26/54 (48%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R+ L K + + +R+I+ +K K + +S+D+ R E+
Sbjct: 106 TEERRKDLVKIVRGEAEGGRVAVRNIRRDANNDLKALLKDKEISEDEDRKAQEE 159
>1wqg_A Ribosome recycling factor; translation factor, triple-helix bundle,
protein synthesis, translation; 2.15A {Mycobacterium
tuberculosis} SCOP: d.67.3.1 PDB: 1wqf_A 1wqh_A
Length = 185
Score = 31.7 bits (73), Expect = 0.018
Identities = 14/54 (25%), Positives = 25/54 (46%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R L K AK + K ++R+I+ K + + K +D+V +
Sbjct: 106 TEERRRELVKQAKHKGEEAKVSVRNIRRKAMEELHRIRKEGEAGEDEVGRAEKD 159
>1dd5_A Ribosome recycling factor; three-helix bundle, beta-alpha-beta
sandwich; 2.55A {Thermotoga maritima} SCOP: d.67.3.1
PDB: 1t1m_C
Length = 185
Score = 31.4 bits (72), Expect = 0.023
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T E RE K AK + + K IR+I+ + K +K +K + +DD + + +
Sbjct: 106 TTEQREKWVKKAKEIVEEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLENE 159
>3lhp_S 4E10_D0_1ISEA_004_N (T93); epitope-scaffold, immune system; 2.70A
{Artificial gene} PDB: 1y69_8
Length = 123
Score = 30.2 bits (69), Expect = 0.040
Identities = 6/54 (11%), Positives = 18/54 (33%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E + K + + + +R++ K + ++ D+
Sbjct: 44 TEERIKDWLKIVRGEAEQARVAVRNVGRDANDKAAALGKDKEINWFDISQSLWD 97
>3lf9_A 4E10_D0_1IS1A_001_C (T161); epitope-scaffold, immune system;
2.00A {Artificial gene}
Length = 121
Score = 29.5 bits (67), Expect = 0.079
Identities = 9/54 (16%), Positives = 21/54 (38%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R+ L K + + +R+I + K + ++ D+ +
Sbjct: 34 TEERRKDLVKIVRGEAEGGRVAVRNIARDAANDLAALGKDKEVNWFDISQALWE 87
>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
aeolicus} SCOP: d.67.3.1
Length = 184
Score = 28.3 bits (64), Expect = 0.30
Identities = 10/54 (18%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 25 TKEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
T+E R L + + + + +R+++ + + ++ + EG+S+D+ + E+
Sbjct: 108 TEERRRELVRLLHKITEEARVRVRNVRREAKEMIE---ELEGISEDEKKRALER 158
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 28.3 bits (62), Expect = 0.37
Identities = 16/93 (17%), Positives = 32/93 (34%), Gaps = 21/93 (22%)
Query: 11 CRRDKFQDQSSFVV-----TKEHR-ESLSKNAKALFVKCKEN--------------IRDI 50
C K Q + F + + E++ + + L + N I I
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 51 QNKYTKTVKNKEKSEGL-SQDDVRSVSEQSAFE 82
Q + + +K+K L +V++ +AF
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
>3swz_A Steroid 17-alpha-hydroxylase/17,20 lyase; cytochrome P450, CYP17A1,
P450C17, P450 17A1, monooxyg 17A-hydroxylase, heme
protein; HET: HEM TOK; 2.40A {Homo sapiens} PDB: 3ruk_A*
Length = 494
Score = 26.3 bits (59), Expect = 1.6
Identities = 5/53 (9%), Positives = 17/53 (32%), Gaps = 10/53 (18%)
Query: 26 KEHRESLSKNAKALFVKCKENIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQ 78
+ ++E + +I ++ + + N + D +S+
Sbjct: 230 ENYKEKFRSD----------SITNMLDTLMQAKMNSDNGNAGPDQDSELLSDN 272
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown
function, B-subunit binding, isomerase,
nucleotide-binding, topoisomerase; HET: DNA; 1.95A
{Myxococcus xanthus}
Length = 369
Score = 26.3 bits (59), Expect = 1.7
Identities = 7/41 (17%), Positives = 9/41 (21%), Gaps = 12/41 (29%)
Query: 55 TKTVKN--KEKSEGLSQDDVR-------SVS---EQSAFES 83
+ E V +VS Q AF
Sbjct: 277 RGALAKLSGETRGAFPWARVAQGLTAIVAVSGPRRQMAFAG 317
>4a2l_A BT_4663, two-component system sensor histidine kinase/RESP;
transcription, beta-propeller; HET: PGE PG4 MES 2PE;
2.60A {Bacteroides thetaiotaomicron} PDB: 4a2m_A*
Length = 795
Score = 25.3 bits (56), Expect = 3.9
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 46 NIRDIQNKYTKTVKNKEKSEGLSQDDVRSVSEQS 79
N K ++N LS + V + E
Sbjct: 333 NYYHPIRNRFKNIRNIPYKNSLSDNVVSCIVEDK 366
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
0.312 0.128 0.358
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,258,144
Number of extensions: 53099
Number of successful extensions: 73
Number of sequences better than 10.0: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 18
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.4 bits)