RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15037
         (149 letters)



>gnl|CDD|214763 smart00647, IBR, In Between Ring fingers.  the domains occurs
          between pairs og RING fingers.
          Length = 64

 Score = 33.2 bits (76), Expect = 0.006
 Identities = 12/27 (44%), Positives = 15/27 (55%)

Query: 3  EGEDGCKRIGCTECGFVFCKDCLQGAH 29
            E+GC R+ C +CGF FC  C    H
Sbjct: 33 TEEEGCNRVTCPKCGFSFCFRCKVPWH 59


>gnl|CDD|216524 pfam01485, IBR, IBR domain.  The IBR (In Between Ring fingers)
          domain is often found to occur between pairs of ring
          fingers (pfam00097). This domain has also been called
          the C6HC domain and DRIL (for double RING finger
          linked) domain. Proteins that contain two Ring fingers
          and an IBR domain (these proteins are also termed RBR
          family proteins) are thought to exist in all eukaryotic
          organisms. RBR family members play roles in protein
          quality control and can indirectly regulate
          transcription. Evidence suggests that RBR proteins are
          often parts of cullin-containing ubiquitin ligase
          complexes. The ubiquitin ligase Parkin is an RBR family
          protein whose mutations are involved in forms of
          familial Parkinson's disease.
          Length = 63

 Score = 29.1 bits (65), Expect = 0.22
 Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)

Query: 3  EGEDGCKRIG-CTECGFVFCKDCLQGAH 29
          E  DG  +   C++CG  FC  C +  H
Sbjct: 31 EKTDGGSQNVTCSKCGTEFCFSCKEPWH 58


>gnl|CDD|215494 PLN02915, PLN02915, cellulose synthase A [UDP-forming], catalytic
          subunit.
          Length = 1044

 Score = 29.1 bits (65), Expect = 0.97
 Identities = 10/22 (45%), Positives = 12/22 (54%)

Query: 5  EDGCKRIGCTECGFVFCKDCLQ 26
          EDG   + C  CGF  CK C +
Sbjct: 29 EDGQPFVACHVCGFPVCKPCYE 50


>gnl|CDD|240433 PTZ00482, PTZ00482, membrane-attack complex/perforin (MACPF)
           Superfamily; Provisional.
          Length = 844

 Score = 28.7 bits (64), Expect = 1.4
 Identities = 7/26 (26%), Positives = 10/26 (38%)

Query: 25  LQGAHIGPCDPGRTSMDQGGASTSDY 50
           L    I  C+ GR        S++ Y
Sbjct: 631 LDNYEIEICEAGREKCTSKQGSSNKY 656


>gnl|CDD|218114 pfam04501, Baculo_VP39, Baculovirus major capsid protein VP39.
           This family constitutes the 39 kDa major capsid protein
           of the Baculoviridae.
          Length = 300

 Score = 27.3 bits (61), Expect = 3.2
 Identities = 7/13 (53%), Positives = 10/13 (76%)

Query: 131 YDLYPMFIPLVLG 143
           Y+ YP+ +PL LG
Sbjct: 280 YEEYPIVVPLFLG 292


>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional.
          Length = 310

 Score = 26.9 bits (60), Expect = 4.1
 Identities = 15/46 (32%), Positives = 15/46 (32%), Gaps = 22/46 (47%)

Query: 17  GFVFCKDCL-----------------QGAHIGPCD----PGRTSMD 41
           GFVF KD L                  G  I P D     G T MD
Sbjct: 87  GFVFTKDDLFEVKPVILENKVPAPARAGV-IAPIDVVIPAGPTGMD 131


>gnl|CDD|181965 PRK09580, sufC, cysteine desulfurase ATPase component; Reviewed.
          Length = 248

 Score = 26.3 bits (58), Expect = 5.9
 Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 3/25 (12%)

Query: 122 ERAGKGVYAYDLYPMFIPLVLGVSS 146
           +RAG+G++    YP+ IP   GVS+
Sbjct: 74  DRAGEGIFMAFQYPVEIP---GVSN 95


>gnl|CDD|238919 cd01944, YegV_kinase_like, YegV-like sugar kinase.  Found only in
           bacteria, YegV-like kinase is part of the
           ribokinase/pfkB sugar kinase superfamily. Its
           oligomerization state is unknown at this time.
          Length = 289

 Score = 26.2 bits (58), Expect = 7.2
 Identities = 16/64 (25%), Positives = 19/64 (29%), Gaps = 9/64 (14%)

Query: 5   EDGCKRIGCTECGFVFCKDCLQGAHIGPCDPGRTSMDQGGASTSDYAVDPTRASQDCLQG 64
           E    RI       V  +    GA I    P   +    G      AVD T  + D    
Sbjct: 204 EASALRIYAKTAAPVVVRLGSNGAWI--RLPDGNTHIIPGFKVK--AVD-TIGAGDT--- 255

Query: 65  AHIG 68
            H G
Sbjct: 256 -HAG 258


>gnl|CDD|215121 PLN02189, PLN02189, cellulose synthase.
          Length = 1040

 Score = 26.1 bits (57), Expect = 8.4
 Identities = 9/21 (42%), Positives = 12/21 (57%)

Query: 6  DGCKRIGCTECGFVFCKDCLQ 26
          DG   + C ECGF  C+ C +
Sbjct: 49 DGDLFVACNECGFPVCRPCYE 69


>gnl|CDD|222135 pfam13445, zf-RING_LisH, RING-type zinc-finger, LisH dimerisation
          motif.  This zinc-finger is the dimerisation motif for
          LisH proteins, and is also a typical RING-type of plant
          ubiquitin ligases.
          Length = 55

 Score = 24.2 bits (53), Expect = 9.2
 Identities = 4/11 (36%), Positives = 7/11 (63%)

Query: 16 CGFVFCKDCLQ 26
          CG V+ +  L+
Sbjct: 32 CGHVYSRKALE 42


  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
   0.317    0.134    0.428 

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: 6,886,629
Number of extensions: 540151
Number of successful extensions: 533
Number of sequences better than 10.0: 1
Number of HSP's gapped: 533
Number of HSP's successfully gapped: 30
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
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: 54 (24.6 bits)