RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6476
         (546 letters)



>gnl|CDD|218425 pfam05091, eIF-3_zeta, Eukaryotic translation initiation factor 3
           subunit 7 (eIF-3).  This family is made up of eukaryotic
           translation initiation factor 3 subunit 7 (eIF-3
           zeta/eIF3 p66/eIF3d). Eukaryotic initiation factor 3 is
           a multi-subunit complex that is required for binding of
           mRNA to 40 S ribosomal subunits, stabilisation of
           ternary complex binding to 40 S subunits, and
           dissociation of 40 and 60 S subunits. These functions
           and the complex nature of eIF3 suggest multiple
           interactions with many components of the translational
           machinery. The gene coding for the protein has been
           implicated in cancer in mammals.
          Length = 517

 Score =  732 bits (1893), Expect = 0.0
 Identities = 279/530 (52%), Positives = 361/530 (68%), Gaps = 35/530 (6%)

Query: 13  PMIQDNVNGWGPCDMPQQFK--DMPYQPFSKGDRLGKISDWTGLAFQDKKYINKYQSQFG 70
           P +  N +GWGP + P++    D+P+ PFSKGD+LGK++DWTG  +Q     +KY S  G
Sbjct: 6   PELPVNEDGWGPPEEPEELDLDDVPFAPFSKGDKLGKVADWTGNTYQ-----DKYASGAG 60

Query: 71  SGSQ-YAYYHEEDESTFHLVDTTRIQKP-------PYQRGRNMRGRGGGRGGAQAQFQLL 122
            GS  +AY H EDES+F LVD     K          +RG+  R +  G+G         
Sbjct: 61  RGSSVFAYVHAEDESSFSLVDDRSRLKARTTKHGKRKRRGKQTRTQRRGQGPQG------ 114

Query: 123 GKGFKLRDRDRKGQSGAKRYGKTQNIRNNKNQAPIKNRDASVTVRSDWVTIEEMDFARFS 182
            +G   R   R GQ   KR+         +     + R+ASV +R DW  +EE+DF+R S
Sbjct: 115 KRGMTSRRAKRGGQRKQKRFQ--TGRGGRRGARHRRLREASVEIRPDWTVLEEIDFSRLS 172

Query: 183 KLSLPNVKEPQDLYCCGSVEFYDKSYDRVNCKNEKPLVS-NERIFHTVTTTDDPIIRKL- 240
           KLSLP++   +D+   G++++YDKSYDR+N KNE+PL   N+R F+ VTT+DDP+IR+L 
Sbjct: 173 KLSLPSLPTGEDIDSYGTLKYYDKSYDRINVKNERPLQELNDREFYNVTTSDDPVIRELA 232

Query: 241 SKTEGNVYATDTILATLMCCTRSNYSWDIVIEKIGDKLFFDKRDNTEFDLLTVNETSQDP 300
            KTEG V+ATD ILA LMC TRS YSWDIVI K+G+KLFFDKRD +  DLLTVNET+ DP
Sbjct: 233 EKTEGTVFATDEILAALMCATRSVYSWDIVITKVGNKLFFDKRDGSNIDLLTVNETAADP 292

Query: 301 PSD-EQTSINSPRNLALEATFINHNFSQQVLKSGDARHSFDNPNPFISEEEEEEGEVASV 359
           P D ++ SINSP +LALEAT IN NF+QQVL   D ++ FD  NPF  E+EE    +AS 
Sbjct: 293 PLDDDENSINSPSSLALEATKINQNFAQQVLLENDEKYQFDEENPFYDEDEE----LASK 348

Query: 360 AYKYRKWDLGEGIG----LVARCEHDGVLASPNGDLQFLNIKALNEWDSKLSGGVEWRQK 415
           AY+YR++DL +       L+ RCE D VL   +G+ QF+ IKALNE+DSK  G V+WR K
Sbjct: 349 AYRYRRFDLSDDTDDPVDLIVRCEVDAVLKGLSGEDQFVTIKALNEFDSKSQG-VDWRTK 407

Query: 416 LDVQRGAVLANELRNNSCKLAKWTVQALLAGSAQIKFGYVSRAQVRDATRHVILGTQQYK 475
           L+ QRGAVLA EL+NNSCKLA+WT QALLAG+ Q+K G+VSRA  RDA  HVILGTQ YK
Sbjct: 408 LESQRGAVLATELKNNSCKLARWTAQALLAGADQMKLGFVSRANPRDAQNHVILGTQTYK 467

Query: 476 PAEFAGQINLNMDNAWGILRCIIDICLKQKDGKYLIMKDPNKPLIRLYDI 525
           P + A QINL M N WGI+R I+D+C+KQ DGKY+++KDPNKP+IRLY++
Sbjct: 468 PKDLAAQINLKMSNMWGIVRTIVDLCMKQPDGKYVLVKDPNKPVIRLYEV 517


>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
          Length = 456

 Score = 33.2 bits (76), Expect = 0.36
 Identities = 22/68 (32%), Positives = 27/68 (39%), Gaps = 5/68 (7%)

Query: 94  IQKPPYQRGRNMRGRGGGRGGAQAQFQLLGKGFKLRDRD-----RKGQSGAKRYGKTQNI 148
           IQ    QRG   RG+GGGRG  Q Q +    G K           +    AK  G+ Q  
Sbjct: 387 IQNGRQQRGGGGRGQGGGRGQQQGQPRRGEGGAKSASAKPAEKPSRRLGDAKPAGEQQRR 446

Query: 149 RNNKNQAP 156
           R  +  A 
Sbjct: 447 RRPRKPAA 454


>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
          Length = 293

 Score = 30.9 bits (70), Expect = 1.8
 Identities = 15/39 (38%), Positives = 17/39 (43%)

Query: 106 RGRGGGRGGAQAQFQLLGKGFKLRDRDRKGQSGAKRYGK 144
            G GGGRGG +      G+G   R   R G  G  R G 
Sbjct: 4   GGFGGGRGGGRGGGGGGGRGGGGRGGGRGGGRGRGRGGG 42


>gnl|CDD|172871 PRK14395, PRK14395, membrane protein; Provisional.
          Length = 195

 Score = 29.2 bits (65), Expect = 3.6
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 101 RGRNMRGRGGGRGGAQAQFQLLGKGF 126
           +G ++R  G G  G    F+LLG   
Sbjct: 26  KGMDVRKHGSGNIGTTNAFRLLGAKL 51


>gnl|CDD|184930 PRK14966, PRK14966, unknown domain/N5-glutamine
           S-adenosyl-L-methionine-dependent methyltransferase
           fusion protein; Provisional.
          Length = 423

 Score = 29.3 bits (65), Expect = 6.4
 Identities = 17/39 (43%), Positives = 19/39 (48%), Gaps = 3/39 (7%)

Query: 341 NPNPFISEEEEE---EGEVASVAYKYRKWDLGEGIGLVA 376
           NPN  I   E E   E  +A +    R WDLG G G VA
Sbjct: 228 NPNVLIPRPETEHLVEAVLARLPENGRVWDLGTGSGAVA 266


>gnl|CDD|227728 COG5441, COG5441, Uncharacterized conserved protein [Function
           unknown].
          Length = 401

 Score = 28.6 bits (64), Expect = 8.1
 Identities = 10/31 (32%), Positives = 16/31 (51%)

Query: 6   GLPHFPPPMIQDNVNGWGPCDMPQQFKDMPY 36
           GLP+       D VN   P  +P+Q++D  +
Sbjct: 265 GLPYVGSCGALDMVNFGAPETVPEQYRDRLF 295


  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
   0.316    0.135    0.408 

Gapped
Lambda     K      H
   0.267   0.0664    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,774,010
Number of extensions: 2666781
Number of successful extensions: 1878
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1865
Number of HSP's successfully gapped: 11
Length of query: 546
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 444
Effective length of database: 6,413,494
Effective search space: 2847591336
Effective search space used: 2847591336
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: 61 (27.4 bits)