RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= 537021.9.peg.476_1
         (241 letters)



>gnl|CDD|162493 TIGR01695, mviN, integral membrane protein MviN.  This model
           represents MviN, a family of integral membrane proteins
           predicted to have ten or more transmembrane regions.
           Although frequently listed as a virulence protein, it is
           not restricted to pathogens and it is an essential
           protein in Sinorhizobium meliloti. In a number of
           species its gene is adjacent to that of the
           uridylyltransferase GlnD, the signal-transducing enzyme
           that performs the key modification to the nitrogen
           regulatory protein PII.
          Length = 502

 Score = 91.6 bits (228), Expect = 2e-19
 Identities = 61/237 (25%), Positives = 114/237 (48%), Gaps = 11/237 (4%)

Query: 4   KLVRNFFTLVASESVNRCLGFVRASLMAAVFGVGKITDAFYTVAYVEFIFVRLAARGDGV 63
            L+++   +      +R  GFVR +++A+ FG G   DAF     +   F RL A  +G 
Sbjct: 1   SLLKSTLIVSLGTLFSRITGFVRDAIIASAFGAGLTADAFNVAFVIPNFFRRLFA--EGA 58

Query: 64  IHNSFIPMFSQRREQNGSENAWRLSSEVFSVLLPILMVMIMVIELVLPLLVRYVMAPGFP 123
            +++F+P+F++ +++   + A R  +   + LL + ++++++I +     V  ++APGF 
Sbjct: 59  FNSAFVPVFTKAKKKE--KEARRAFANTVTTLLILSLLLVVLIGIFFAPFVISLLAPGF- 115

Query: 124 YQSDEYFLTVQLSRVVMPSIFFISLASLVTGILFASGRYFIACMPSMVIHILPIFVLTYA 183
              +   L V L+R++ P +  ISLA++  GIL A  R+FI     ++ +I  I  L + 
Sbjct: 116 -ADETRSLAVSLTRIMFPYLLLISLAAVFGGILNARKRFFIPSFSPILFNIGVILSLLFF 174

Query: 184 LCYGSNMHKAEMIYLLCWGVFLAHAVYFWILYLSAKKSGVELRFQYPRLTCNVKLFL 240
                    A     L  GV +       I     +K+G  L+ ++      +K FL
Sbjct: 175 DWNYGQYSLA-----LAIGVLIGGVAQLLIQLPFLRKAGFLLKPRFNFRDPGLKRFL 226


>gnl|CDD|150794 pfam10166, DUF2368, Uncharacterized conserved protein (DUF2368).
           This family is conserved from nematodes to humans. The
           function is not known.
          Length = 131

 Score = 31.6 bits (72), Expect = 0.17
 Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 7/49 (14%)

Query: 155 ILFASGRYFIACMPSMVIHILP-IFVLTYA--LCYGSNMHK----AEMI 196
           +L  +G       P +VI I+P  FV+ Y   + YG  + +    AE I
Sbjct: 61  VLGLAGGALKKKKPLLVIPIVPLGFVVGYQYDMAYGDKLQRIREEAERI 109


>gnl|CDD|119144 pfam10624, TraS, Plasmid conjugative transfer entry exclusion
           protein TraS.  Entry exclusion (Eex) is a process which
           prevents redundant transfer of DNA between donor cells.
           TraS is a protein involved in Eex. It blocks redundant
           conjugative DNA synthesis and transport between donor
           cells, and it is suggested that TraS interferes with a
           signalling pathway that is required to trigger DNA
           transfer. TraS on the recipient cell is known to form an
           interaction with TraG on the donor cell.
          Length = 164

 Score = 29.1 bits (65), Expect = 1.1
 Identities = 14/59 (23%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 173 HILPIFVLTYALCYGSNMHKAEMIYLLCWGVFLAHAVYFWILYLSAKKSGVELRFQYPR 231
           HI  + V+ +  CY ++   AE  ++LC+ + L   ++ W+     KK+ +   F++ +
Sbjct: 6   HIALVTVIQFIACYLADWGSAETGFILCF-ILLWQGLFIWLFIQIRKKNHISDEFKFSK 63



 Score = 26.8 bits (59), Expect = 5.5
 Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 7/58 (12%)

Query: 68  FIPMFSQRREQNGSENAWRLSSEVFSVLLPILMVMIMVIELVLPLLVRYVMAPGFPYQ 125
           FI +F Q R++N   + ++ S  ++ +++P       V  L+ PLL   +   G  Y+
Sbjct: 42  FIWLFIQIRKKNHISDEFKFSKGIWYIIMP-------VCSLLSPLLSLMIFIGGTLYE 92


>gnl|CDD|172875 PRK14399, PRK14399, membrane protein; Provisional.
          Length = 258

 Score = 28.3 bits (63), Expect = 1.6
 Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)

Query: 137 RVVMPSIFFISLASLVTGILFASGRYFIACMPSMVIHILPIF 178
           +V+  +IF I L S++   LF+   YFI C+ +++ H  PI+
Sbjct: 71  KVLFTAIFAILL-SMIPNELFSQTSYFIPCIFALIGHCWPIY 111


>gnl|CDD|151477 pfam11030, Nucleocapsid-N, Nucleocapsid protein N.  This is the N
          protein of the nucleocapsid. The nucleocapsid functions
          to protect the RNA against nuclease degradation and to
          promote it's reverse transcription. The NC protein
          promotes viral RNA dimerization and encapsidation and
          initiates reverse transcription by activating the
          annealing of the primer tRNA to the initiation site.
          Length = 167

 Score = 27.8 bits (61), Expect = 2.7
 Identities = 10/21 (47%), Positives = 15/21 (71%)

Query: 68 FIPMFSQRREQNGSENAWRLS 88
          F PMF++RR  NG++N  R +
Sbjct: 41 FRPMFNRRRNNNGNQNRGRQN 61


>gnl|CDD|162106 TIGR00917, 2A060601, Niemann-Pick C type protein family.  The model
           describes Niemann-Pick C type protein in eukaryotes. The
           defective protein has been associated with Niemann-Pick
           disease which is described in humans as autosomal
           recessive lipidosis. It is characterized by the
           lysosomal accumulation of unestrified cholesterol. It is
           an integral membrane protein, which indicates that this
           protein is most likely involved in cholesterol transport
           or acts as some component of cholesterol homeostasis.
          Length = 1204

 Score = 27.1 bits (60), Expect = 3.7
 Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 18/80 (22%)

Query: 91  VFSVL-LPILMVMIMVIE-LVLPLLVRYVMAPGFPYQSDEYF-------------LTVQL 135
           VFS + L   ++++ VI  LVL + V  +      YQ  E F             L  QL
Sbjct: 625 VFSYIGLKATLIIMEVIPFLVLAVGVDNIFILVQTYQRLERFYREVGVDNEQELTLEQQL 684

Query: 136 SRVVM---PSIFFISLASLV 152
            R +    PSI   SL+  +
Sbjct: 685 GRALGEVGPSITLASLSESL 704


>gnl|CDD|180884 PRK07207, PRK07207, ribonucleotide-diphosphate reductase subunit
           alpha; Validated.
          Length = 965

 Score = 26.9 bits (60), Expect = 4.7
 Identities = 10/23 (43%), Positives = 15/23 (65%)

Query: 127 DEYFLTVQLSRVVMPSIFFISLA 149
           D YFL V  +R+ +P  FF+ +A
Sbjct: 306 DRYFLHVDGTRIELPQAFFMRVA 328


>gnl|CDD|184448 PRK14010, PRK14010, potassium-transporting ATPase subunit B;
           Provisional.
          Length = 673

 Score = 26.2 bits (57), Expect = 7.8
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 12/62 (19%)

Query: 95  LLPILMV---MIMVIELVLPLLVRYVMAPG-FPYQSDEYFLTVQLSRVVMPSIFFISLAS 150
           L P+ M+   ++ V+E+ + L +   + P  F  +S        +SR+ + SIF I L +
Sbjct: 24  LYPVYMIKNPIMFVVEVGMLLALGLTIYPDLFHQES--------VSRLYVFSIFIILLLT 75

Query: 151 LV 152
           LV
Sbjct: 76  LV 77


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.334    0.144    0.439 

Gapped
Lambda     K      H
   0.267   0.0731    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,886,217
Number of extensions: 248515
Number of successful extensions: 885
Number of sequences better than 10.0: 1
Number of HSP's gapped: 879
Number of HSP's successfully gapped: 51
Length of query: 241
Length of database: 5,994,473
Length adjustment: 91
Effective length of query: 150
Effective length of database: 4,028,145
Effective search space: 604221750
Effective search space used: 604221750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 56 (25.3 bits)