RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1643
         (962 letters)



>d1ykhb1 a.252.1.1 (B:2-130) RNA polymerase II holoenzyme component
           SRB7 (MED21) {Baker's yeast (Saccharomyces cerevisiae)
           [TaxId: 4932]}
          Length = 129

 Score =  122 bits (307), Expect = 3e-33
 Identities = 21/116 (18%), Positives = 49/116 (42%), Gaps = 3/116 (2%)

Query: 840 EQADNFCNSVGILQQTAIPSKFSGFDRGGSQTPQQQTQQEDYA---HLFATLISRCARDI 896
           +  + FC ++  + +     + +  +   S         E+++      +T I    R I
Sbjct: 13  QMTEQFCATLNYIDKNHGFERLTVNEPQMSDKHATVVPPEEFSNTIDELSTDIILKTRQI 72

Query: 897 DALIESLPNEDSTTELQLASLRKLEQDNQGAAERLEDTVRRGELLLEQIQAALTDI 952
           + LI+SLP  D + E QL  +  L++      +   + +++ E L+  + + + D 
Sbjct: 73  NKLIDSLPGVDVSAEEQLRKIDMLQKKLVEVEDEKIEAIKKKEKLMRHVDSMIEDF 128


>d1yvra1 a.118.25.1 (A:5-363) 60-kda SS-aARo ribonucleoprotein
           {African clawed frog (Xenopus laevis) [TaxId: 8355]}
          Length = 359

 Score = 74.2 bits (182), Expect = 1e-14
 Identities = 48/313 (15%), Positives = 104/313 (33%), Gaps = 63/313 (20%)

Query: 295 RTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPD---AVRKQLQKWYMGKESDQLV 351
           +        +    +       F+ +  +            A+RK +  WY  K++  L 
Sbjct: 104 KQAAFRAVPEVC--RIPTHLFTFIQFKKDLKEGMKCGMWGRALRKAVSDWYNTKDALNLA 161

Query: 352 VLVAKCSVYQGLSHANVLKLIHFDVFHQSPDKKLALYAIAFGFAYVSHRLISGKFLATPR 411
           + V K     G SH ++L+L H      + +    +        YVS      +     +
Sbjct: 162 MAVTKYKQRNGWSHKDLLRLSH---IKPANEGLTMV------AKYVSKGWKEVQEAYKEK 212

Query: 412 VPPFVTSDDCFDKASDKVKTIVKDVAVVRCNTSHQKVVAAAVKTHSLGIESVCPKFAKSF 471
                         ++KV   ++    V+      + +   +  + L  E +     KS 
Sbjct: 213 ELS---------PETEKVLKYLEATERVKRTKDELE-IIHLIDEYRLVREHLLTIHLKSK 262

Query: 472 KVNTACLEGMTQRGLLQSMHRLRKDNVLSSEDHAIVDESTTCGTYVKQLG-ASPVTEPPL 530
           ++  + L+ M    LL+++ ++  D+VL+     +        +  ++L     + +  +
Sbjct: 263 EIWKSLLQDMPLTALLRNLGKMTADSVLAPASSEV-------SSVCERLTNEKLLKKARI 315

Query: 531 HPAEVLAAYAEYVLAPVTKMASFQKKAVKPPPSEGGGGDQAQEKSEDETPVLTAKAPEPA 590
           HP  +L A   Y                     + G G++ + +            P+ +
Sbjct: 316 HPFHILVALETY---------------------KKGHGNRGKLRWI----------PDTS 344

Query: 591 IVSALQELYKSSF 603
           IV AL   +  SF
Sbjct: 345 IVEALDNAFYKSF 357


>d2vgla_ a.118.1.10 (A:) Adaptin alpha C subunit N-terminal fragment
           {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 584

 Score = 28.2 bits (62), Expect = 5.0
 Identities = 21/169 (12%), Positives = 49/169 (28%), Gaps = 32/169 (18%)

Query: 241 QLKYLIKCLIVKVLDNSNPLLINYDIVLYVLAKCLQLVQQDPKAKL------------PS 288
            L       + + L +        ++    L     L   +   +              +
Sbjct: 317 NLLVRACNQLGQFLQHRET-----NLRYLALESMCTLASSEFSHEAVKTHIETVINALKT 371

Query: 289 TTIIEFRTKVLELAVDRVAGQNSERFLMFVLYMLNFSPKSLRPDAVRKQLQ--------- 339
              +  R + ++L        N+++ +  +L  L  +  S+R + V K            
Sbjct: 372 ERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDY 431

Query: 340 KWYMGKESDQLVVLVAKCSVYQGLSHANVLK--LIHFDVFHQSPDKKLA 386
            WY+    D ++ L+     Y        +   +I+ D       K + 
Sbjct: 432 TWYV----DTILNLIRIAGDYVSEEVWYRVIQIVINRDDVQGYAAKTVF 476


>d1t9ia_ d.95.2.1 (A:) DNA endonuclease I-CreI {Chlamydomonas
           reinhardtii [TaxId: 3055]}
          Length = 153

 Score = 27.5 bits (61), Expect = 5.3
 Identities = 11/104 (10%), Positives = 31/104 (29%), Gaps = 9/104 (8%)

Query: 720 IKNYEKIWRYYKRQIPKARGITIHKLLSWSIKQMWHPDVYVVICSQENLSLYKTNVIFAE 779
           + +   +     R        ++   +   IK + +      +     L   + N++   
Sbjct: 57  LVDEIGVGYVRDRG-------SVSDYILSEIKPLHN--FLTQLQPFLKLKQKQANLVLKI 107

Query: 780 YMEKTKRKNTNQENLSLYKTNVIFAEYMEKTKRKNTNSSHLKYM 823
             +    K +  + L +       A   +   RK T+ +    +
Sbjct: 108 IEQLPSAKESPDKFLEVCTWVDQIAALNDSKTRKTTSETVRAVL 151


  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
   0.315    0.130    0.368 

Gapped
Lambda     K      H
   0.267   0.0499    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 3,215,171
Number of extensions: 145395
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 6
Length of query: 962
Length of database: 2,407,596
Length adjustment: 94
Effective length of query: 868
Effective length of database: 1,116,976
Effective search space: 969535168
Effective search space used: 969535168
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.3 bits)