RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

Searching..................................................done

Query= psy1365
         (140 letters)



>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
           thermophilus [TaxId: 274]}
          Length = 125

 Score =  104 bits (261), Expect = 1e-30
 Identities = 40/140 (28%), Positives = 63/140 (45%), Gaps = 27/140 (19%)

Query: 3   TNIDGKRKVMFALTAIKGCGRRFSNIVLKKADIDLNKRAGECSEEEVDKIITIMTNPRQY 62
             I   ++V  ALT I G G+  +   L+K  I+   R  + +E EV ++       R+Y
Sbjct: 6   VEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRL-------REY 58

Query: 63  KIPDWFLNRQKDIVDGKYSQILLTSTAQLDSKLREDLERLKKIRAHRGMRHYWGLRVRGQ 122
               W L  +                  L +++  +++RL  I  +RG+RH  GL VRGQ
Sbjct: 59  VENTWKLEGE------------------LRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQ 100

Query: 123 HTKTTGR--RGRTVGVSKKK 140
            T+T  R  +G    V+ KK
Sbjct: 101 RTRTNARTRKGPRKTVAGKK 120


>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
           [TaxId: 562]}
          Length = 114

 Score = 96.0 bits (239), Expect = 2e-27
 Identities = 34/130 (26%), Positives = 55/130 (42%), Gaps = 26/130 (20%)

Query: 3   TNIDGKRKVMFALTAIKGCGRRFSNIVLKKADIDLNKRAGECSEEEVDKIITIMTNPRQY 62
            NI   +  + ALT+I G G+  S  +L  A I  + +  E SE ++D +   +      
Sbjct: 6   INIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAKF--- 62

Query: 63  KIPDWFLNRQKDIVDGKYSQILLTSTAQLDSKLREDLERLKKIRAHRGMRHYWGLRVRGQ 122
            + +  L R                      ++   ++RL  +  +RG+RH  GL VRGQ
Sbjct: 63  -VVEGDLRR----------------------EISMSIKRLMDLGCYRGLRHRRGLPVRGQ 99

Query: 123 HTKTTGRRGR 132
            TKT  R  +
Sbjct: 100 RTKTNARTRK 109


>d1yeya1 c.1.11.2 (A:184-435) RTS beta protein {Xanthomonas
           campestris pv. campestris [TaxId: 340]}
          Length = 252

 Score = 27.6 bits (60), Expect = 0.49
 Identities = 5/30 (16%), Positives = 12/30 (40%)

Query: 95  LREDLERLKKIRAHRGMRHYWGLRVRGQHT 124
           +++D+ R +  RA  G      +    +  
Sbjct: 42  VQDDIRRCRLARAAIGPDIAMAVDANQRWD 71


>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein
           KsgA {Escherichia coli [TaxId: 562]}
          Length = 252

 Score = 26.4 bits (57), Expect = 1.2
 Identities = 13/41 (31%), Positives = 15/41 (36%), Gaps = 5/41 (12%)

Query: 8   KRKVMFALTAIKGCGRRFSNIVLKKADIDLNKRAGECSEEE 48
           +RK     T     G  FS  VL    ID   RA   S  +
Sbjct: 205 RRK-----TIRNSLGNLFSVEVLTGMGIDPAMRAENISVAQ 240


>d1jpma1 c.1.11.2 (A:126-359) L-Ala-D/L-Glu epimerase {Bacillus
           subtilis [TaxId: 1423]}
          Length = 234

 Score = 25.0 bits (53), Expect = 3.8
 Identities = 5/21 (23%), Positives = 10/21 (47%)

Query: 95  LREDLERLKKIRAHRGMRHYW 115
           +  D+ R+++IR   G     
Sbjct: 43  IATDIARIQEIRKRVGSAVKL 63


>d2gdqa1 c.1.11.2 (A:119-374) Hypothetical protein YitF {Bacillus
           subtilis [TaxId: 1423]}
          Length = 256

 Score = 25.0 bits (53), Expect = 4.2
 Identities = 4/36 (11%), Positives = 11/36 (30%)

Query: 95  LREDLERLKKIRAHRGMRHYWGLRVRGQHTKTTGRR 130
            +ED+  +  ++   G      L     +      +
Sbjct: 49  FKEDVRHINALQHTAGSSITMILDANQSYDAAAAFK 84


>d1frba_ c.1.7.1 (A:) FR-1 (fibroblast growth factor-induced)
           protein {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 315

 Score = 24.1 bits (51), Expect = 6.6
 Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 7/39 (17%)

Query: 30  LKKADIDLNKRAGECSEEEVDKIITIMTNPRQYKIPDWF 68
           ++  D  L       S+EE+  I++   N R   +P+  
Sbjct: 273 IQVFDFQL-------SDEEMATILSFNRNWRACLLPETV 304


>d1rvka1 c.1.11.2 (A:127-381) Hypothetical protein Atu3453
           {Agrobacterium tumefaciens [TaxId: 358]}
          Length = 255

 Score = 23.9 bits (50), Expect = 9.0
 Identities = 8/54 (14%), Positives = 16/54 (29%), Gaps = 3/54 (5%)

Query: 65  PDWFLNRQKDIVDGKYSQI---LLTSTAQLDSKLREDLERLKKIRAHRGMRHYW 115
           P+ +    + +V   Y  I              ++ DL+    +R   G     
Sbjct: 24  PEDYGRFAETLVKRGYKGIKLHTWMPPVSWAPDVKMDLKACAAVREAVGPDIRL 77


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.320    0.136    0.396 

Gapped
Lambda     K      H
   0.267   0.0629    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 541,948
Number of extensions: 24406
Number of successful extensions: 114
Number of sequences better than 10.0: 1
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 17
Length of query: 140
Length of database: 2,407,596
Length adjustment: 77
Effective length of query: 63
Effective length of database: 1,350,386
Effective search space: 85074318
Effective search space used: 85074318
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 (21.8 bits)
S2: 48 (22.5 bits)