RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9213
         (378 letters)



>d2bs2b1 a.1.2.1 (B:107-239) Fumarate reductase {Wolinella
           succinogenes [TaxId: 844]}
          Length = 133

 Score = 29.1 bits (64), Expect = 0.42
 Identities = 9/71 (12%), Positives = 16/71 (22%), Gaps = 10/71 (14%)

Query: 299 PVYMVFVYWKDKPRWLNNIAVFIGSRMVGTTTRNMQQARNMMGKLRCTLMGRCRLIELDV 358
              ++   +         +   I      T     +   +  G   C  +  C       
Sbjct: 56  GTKIMREDFVGAAGLNRVVRFMIDPHDERTDEDYYELIGDDDGVFGCMTLLAC------- 108

Query: 359 RQTIHVCPGGL 369
                VCP  L
Sbjct: 109 ---HDVCPKNL 116


>d1gxja_ d.215.1.1 (A:) Smc hinge domain {Thermotoga maritima
           [TaxId: 2336]}
          Length = 161

 Score = 26.4 bits (58), Expect = 4.1
 Identities = 12/64 (18%), Positives = 25/64 (39%)

Query: 310 KPRWLNNIAVFIGSRMVGTTTRNMQQARNMMGKLRCTLMGRCRLIELDVRQTIHVCPGGL 369
             ++   ++V +G        RN+  A+ ++  L+    GR  ++ LD+         GL
Sbjct: 30  DEKYSLAVSVLLGGTAQNIVVRNVDTAKAIVEFLKQNEAGRVTILPLDLIDGSFNRISGL 89

Query: 370 FLNP 373
               
Sbjct: 90  ENER 93


>d1viua_ d.113.1.1 (A:) ADP-ribose pyrophosphatase homologue YffH
           {Escherichia coli [TaxId: 562]}
          Length = 189

 Score = 26.6 bits (58), Expect = 4.5
 Identities = 6/40 (15%), Positives = 13/40 (32%), Gaps = 4/40 (10%)

Query: 212 ITLLLMCIDDVFALINYATFVESSFTLTSVTGLLWLRLKR 251
           I +L +       +I      +      +V  L +L+   
Sbjct: 151 IEVLELPFSQALEMIKTGEIRDGK----TVLLLNYLQTSH 186


>d1rh5b_ f.23.28.1 (B:) Preprotein translocase SecE subunit
           {Archaeon Methanococcus jannaschii [TaxId: 2190]}
          Length = 56

 Score = 24.2 bits (53), Expect = 6.2
 Identities = 7/42 (16%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 245 LWLRLKRPDLKRPIKVSIILPITFFIIAA--FLVTLPMYVKP 284
           +WL LK+P     + V+ +  +   ++    +++ +P     
Sbjct: 11  VWLVLKKPTKDEYLAVAKVTALGISLLGIIGYIIHVPATYIK 52


>d3ecga1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 2
           (HIV-2) protease {Human immunodeficiency virus type 2
           [TaxId: 11709]}
          Length = 99

 Score = 24.8 bits (55), Expect = 7.0
 Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 1/27 (3%)

Query: 321 IGSRMVGTTTRNMQQARNMMGKLRCTL 347
             + M G T  N+   RN++  L  +L
Sbjct: 72  RATIMTGDTPINIF-GRNILTALGMSL 97


>d2nmza1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 1
           protease {Human immunodeficiency virus type 1 [TaxId:
           11676]}
          Length = 99

 Score = 24.8 bits (55), Expect = 7.8
 Identities = 10/27 (37%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 321 IGSRMVGTTTRNMQQARNMMGKLRCTL 347
           IG+ +VG T  N+   RN++ ++  TL
Sbjct: 72  IGTVLVGPTPANII-GRNLLTQIGATL 97


>d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease
           {Human immunodeficiency virus type 1 [TaxId: 11676]}
          Length = 203

 Score = 25.7 bits (57), Expect = 9.4
 Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 1/27 (3%)

Query: 321 IGSRMVGTTTRNMQQARNMMGKLRCTL 347
           IG+ +VG T  N+   RN++ ++ CTL
Sbjct: 176 IGTVLVGPTPVNII-GRNLLTQIGCTL 201


  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
   0.329    0.142    0.449 

Gapped
Lambda     K      H
   0.267   0.0805    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,424,587
Number of extensions: 65407
Number of successful extensions: 192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 14
Length of query: 378
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 291
Effective length of database: 1,213,086
Effective search space: 353008026
Effective search space used: 353008026
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.4 bits)