RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16766
         (621 letters)



>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 1449

 Score =  250 bits (639), Expect = 5e-72
 Identities = 112/481 (23%), Positives = 183/481 (38%), Gaps = 87/481 (18%)

Query: 124 LKLKYYTDQEVKQLSVVKVFSPITFNSLGHTI-PGGLYDLAMGPISERGDPCTTCGNNYT 182
           ++   ++ +EV+ +SV K+  P T +        GGL D  +G I +R   C TC     
Sbjct: 16  VQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSI-DRNLKCQTCQEGMN 74

Query: 183 KCKGHIGHIELPVPVINTLFFRDVQLLLKLSCFLCHKINIPATSQLLFINQIKLLDAGYV 242
           +C GH GHI+L  PV +  F   ++ + +  C  C K+       LL  +   +  A  +
Sbjct: 75  ECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKL-------LLDEHNELMRQALAI 127

Query: 243 TQAKDLEETLFNEENLRLHPAQLVQLVDSHVQSILAHGTKICDINDYKGGEELRSAFVAQ 302
             +K     ++                       L     +C+  D    ++        
Sbjct: 128 KDSKKRFAAIWT----------------------LCKTKMVCE-TDVPSEDDPTQ----- 159

Query: 303 VLSRHVKRKCIFCATPINAISYQQRKIIKSFKIDKDNLDQSLDKSLNKSSNQIIRKREQG 362
                       C      I     K++ S+K D+   D                + E  
Sbjct: 160 ------LVSRGGCGNTQPTIRKDGLKLVGSWKKDRATGD--------------ADEPELR 199

Query: 363 YVMASEVEADFKKLWTNEHLFLKCLIPVLDTTKELIATDIMFIRSLVVPPNNLRPL-SME 421
            +   E+   FK +   +          L   +     + M +  L VPP  +RP  S  
Sbjct: 200 VLSTEEILNIFKHISVKD-------FTSLGFNEVFSRPEWMILTCLPVPPPPVRPSISFN 252

Query: 422 QMPPVEHSRNKLYQSILYSCGSLKSVIMAMKNKEQSDLLSEALKGIRGDTLNNKLQNSWH 481
           +    E         IL +  SL+                           ++ ++ +  
Sbjct: 253 ESQRGEDDLTFKLADILKANISLE-------------------TLEHNGAPHHAIEEAES 293

Query: 482 ELQYNVDLLMD---AKLNINKTTGAHQIDGLKQMLDGKTGMIRQNMMGKRVNFAGRSVIT 538
            LQ++V   MD   A            +  ++  L GK G IR N+MGKRV+F+ R+VI+
Sbjct: 294 LLQFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVIS 353

Query: 539 PDPYLNIDSIGVPLEFAKTLTYPVPVTPWNVTLLRKMVINGPNVYPGANMIQNEDGSVVR 598
            DP L +D +GVP   AKTLTYP  VTP+N+  L ++V NGPN +PGA  +  + G  + 
Sbjct: 354 GDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRID 413

Query: 599 I 599
           +
Sbjct: 414 L 414



 Score = 71.8 bits (175), Expect = 1e-13
 Identities = 31/66 (46%), Positives = 44/66 (66%)

Query: 17  RSVITPDPYLNIDSIGVPLEFAKTLTYPVPVTPWNVTLLRKMVINGPNVYPGANMIQNED 76
           R+VI+ DP L +D +GVP   AKTLTYP  VTP+N+  L ++V NGPN +PGA  +  + 
Sbjct: 349 RTVISGDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDS 408

Query: 77  GSVVRI 82
           G  + +
Sbjct: 409 GDRIDL 414


>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus
           thermophilus [TaxId: 274]}
          Length = 1504

 Score =  133 bits (336), Expect = 4e-33
 Identities = 53/256 (20%), Positives = 96/256 (37%), Gaps = 37/256 (14%)

Query: 349 NKSSNQIIRKREQGYVMASEVEADFKKLWTNEHLFLKCLIPVLDTTKELIATDI----MF 404
            +   + I++  +   + +  +   +++              L+  +  + +      M 
Sbjct: 453 ARMGAEAIQQLLKELDLEALEKELLEEMKHPSRARRAKARKRLEVVRAFLDSGNRPEWMI 512

Query: 405 IRSLVVPPNNLRPL-SMEQMPPVEHSRNKLYQSILYSCGSLKSVIMAMKNKEQSDLLSEA 463
           + ++ V P +LRP+  ++         N LY+ ++     LK                  
Sbjct: 513 LEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLK------------------ 554

Query: 464 LKGIRGDTLNNKLQNSWHELQYNVDLLMDAKLNINKTTGAHQ---IDGLKQMLDGKTGMI 520
            K +        ++N    LQ  VD L+D        T       +  L  +L GK G  
Sbjct: 555 -KLLAQGAPEIIIRNEKRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRF 613

Query: 521 RQNMMGKRVNFAGRSVITPDPYLNIDSIGVPLEFAKTLTYPVPVTPWNVTLLRKMVING- 579
           RQN++GKRV+++GRSVI   P L +   G+P   A  L  P  +        +KM   G 
Sbjct: 614 RQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLL--------KKMEEKGI 665

Query: 580 -PNVYPGANMIQNEDG 594
            PNV     M++ +  
Sbjct: 666 APNVKAARRMLERQRD 681



 Score = 59.8 bits (144), Expect = 7e-10
 Identities = 18/66 (27%), Positives = 26/66 (39%), Gaps = 10/66 (15%)

Query: 14  FPHRSVITPDPYLNIDSIGVPLEFAKTLTYPVPVTPWNVTLLRKMVING--PNVYPGANM 71
           +  RSVI   P L +   G+P   A  L  P  +        +KM   G  PNV     M
Sbjct: 624 YSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLL--------KKMEEKGIAPNVKAARRM 675

Query: 72  IQNEDG 77
           ++ +  
Sbjct: 676 LERQRD 681



 Score = 29.0 bits (64), Expect = 2.3
 Identities = 19/54 (35%), Positives = 22/54 (40%), Gaps = 7/54 (12%)

Query: 167 ISERGDPCTTCGNNYTKCK---GHIGHIELPVPVINTLFFRDVQ----LLLKLS 213
               G  C  CG   TK       +GHIEL  P  +  F +DV      LL LS
Sbjct: 65  QRFEGKVCERCGVEVTKSIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLS 118


  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
   0.319    0.135    0.395 

Gapped
Lambda     K      H
   0.267   0.0477    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,253,589
Number of extensions: 106096
Number of successful extensions: 235
Number of sequences better than 10.0: 1
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 6
Length of query: 621
Length of database: 2,407,596
Length adjustment: 91
Effective length of query: 530
Effective length of database: 1,158,166
Effective search space: 613827980
Effective search space used: 613827980
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: 56 (26.0 bits)