RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy12987
         (82 letters)



>gnl|CDD|202000 pfam01834, XRCC1_N, XRCC1 N terminal domain. 
          Length = 153

 Score = 70.6 bits (172), Expect = 3e-17
 Identities = 35/76 (46%), Positives = 47/76 (61%)

Query: 1  MAPIKFARVVSYSSEDPVHKADNLLNPESTKKWKCKSMGEKQAVAILQLSSQVQINGIDI 60
          M  I    VVS SS+D  H A+NLL  ++ +KW+    GEK    +LQL  + QI+ +DI
Sbjct: 1  MPEISLRHVVSCSSQDSTHCAENLLKADTYRKWRAAKAGEKTISVVLQLEKEEQIHSVDI 60

Query: 61 GNEFSAFVEVFVAKSS 76
          GN+ SAFVEV V  S+
Sbjct: 61 GNDGSAFVEVLVGSSA 76


>gnl|CDD|146947 pfam04555, XhoI, Restriction endonuclease XhoI.  This family
          consists of type II restriction enzymes (EC:3.1.21.4)
          that recognise the double-stranded sequence CTCGAG and
          cleave after C-1.
          Length = 196

 Score = 27.8 bits (62), Expect = 0.55
 Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 3/40 (7%)

Query: 30 TKKWKCKSMGEKQAVAILQLSSQVQINGIDIGNEFSAFVE 69
          TK W    + +   +A ++L SQV   G   GN F+   E
Sbjct: 60 TKLWDLLVVQKGVLIAAVELKSQV---GPSFGNNFNNRAE 96


>gnl|CDD|224540 COG1625, COG1625, Fe-S oxidoreductase, related to NifB/MoaA family
           [Energy production and conversion].
          Length = 414

 Score = 26.2 bits (58), Expect = 2.1
 Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 4/35 (11%)

Query: 26  NPESTKKWKCKSMGEKQAVAILQLSSQVQINGIDI 60
           NPE   K     M    A  +L+L  +     I++
Sbjct: 147 NPELRAKL----MKNPNAEQLLELLRRFAERCIEV 177


>gnl|CDD|203376 pfam06016, Reovirus_L2, Reovirus core-spike protein lambda-2 (L2).
            This family consists of several Reovirus core-spike
            protein lambda-2 (L2) sequences. The reovirus L2 genome
            segment encodes the core spike protein lambda-2, which
            mediates enzymatic reactions in 5' capping of the viral
            plus-strand transcripts.
          Length = 1290

 Score = 25.9 bits (57), Expect = 2.3
 Identities = 11/68 (16%), Positives = 20/68 (29%)

Query: 5    KFARVVSYSSEDPVHKADNLLNPESTKKWKCKSMGEKQAVAILQLSSQVQINGIDIGNEF 64
               R   Y+  D + K    L P ++  W   S         +   S +  + I     +
Sbjct: 954  GGGRDEPYADPDALLKIIRTLWPAASISWVTLSSTLDWLRYAIGEGSSLSSDDIRTAISY 1013

Query: 65   SAFVEVFV 72
            S    +  
Sbjct: 1014 SKLTPILH 1021


>gnl|CDD|235343 PRK05096, PRK05096, guanosine 5'-monophosphate oxidoreductase;
           Provisional.
          Length = 346

 Score = 26.1 bits (58), Expect = 2.3
 Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 4/38 (10%)

Query: 45  AILQLSSQVQINGIDIGNEFS-AFVEVFVAK--SSNPD 79
            IL LS  +    ID+ N +S  FV+ FVAK   + PD
Sbjct: 115 QILALSPALNFICIDVANGYSEHFVQ-FVAKAREAWPD 151


>gnl|CDD|239001 cd02046, hsp47, Heat shock protein 47 (Hsp47), also called
           colligin, because of its collagen binding ability, is a
           chaperone specific for procollagen. It has been shown to
           be essential for collagen biosynthesis, but its exact
           function is still unclear. Hsp47 is a non-inhibitory
           member of the SERPIN superfamily and corresponds to
           clade H.
          Length = 366

 Score = 24.9 bits (54), Expect = 5.4
 Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 2/31 (6%)

Query: 16  DPVHKADNLLNPESTKKWKCKSMGEKQAVAI 46
           +P+ + + LL  E  K W  K   +K+AVAI
Sbjct: 236 EPLERLEKLLTREQLKTWISKM--KKRAVAI 264


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.312    0.127    0.358 

Gapped
Lambda     K      H
   0.267   0.0704    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,859,898
Number of extensions: 269759
Number of successful extensions: 148
Number of sequences better than 10.0: 1
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 10
Length of query: 82
Length of database: 10,937,602
Length adjustment: 51
Effective length of query: 31
Effective length of database: 8,675,548
Effective search space: 268941988
Effective search space used: 268941988
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: 53 (24.2 bits)