RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780883|ref|YP_003065296.1| hypothetical protein
CLIBASIA_03900 [Candidatus Liberibacter asiaticus str. psy62]
         (139 letters)



>gnl|CDD|145133 pfam01809, DUF37, Domain of unknown function DUF37.  This domain is
           found in short (70 amino acid) hypothetical proteins
           from various bacteria. The domain contains three
           conserved cysteine residues. A member from Aeromonas
           hydrophila has been found to have hemolytic activity
           (unpublished).
          Length = 68

 Score =  109 bits (275), Expect = 3e-25
 Identities = 33/67 (49%), Positives = 44/67 (65%)

Query: 56  RLIGIGIIRIYQLIFSNVFGNSCRYLPTCSEYGYEAIARYGLWIGSWLTLLRLIKCNPLG 115
           + + IG+IR YQ   S + G SCR+ PTCSEY  EAI R+G   G WL L R+++C+P  
Sbjct: 2   KRLLIGLIRFYQRFISPLLGPSCRFYPTCSEYAIEAIERHGALKGGWLALKRILRCHPFH 61

Query: 116 SDGFDPV 122
             G+DPV
Sbjct: 62  PGGYDPV 68


>gnl|CDD|31102 COG0759, COG0759, Uncharacterized conserved protein [Function
           unknown].
          Length = 92

 Score = 99.3 bits (247), Expect = 3e-22
 Identities = 33/73 (45%), Positives = 47/73 (64%)

Query: 58  IGIGIIRIYQLIFSNVFGNSCRYLPTCSEYGYEAIARYGLWIGSWLTLLRLIKCNPLGSD 117
           + I +IR YQ   S +   SCR+ PTCSEY  EA+ ++GL  G WLTL R+++C+P    
Sbjct: 9   LLIFLIRFYQRFISPLLPPSCRFYPTCSEYAIEALKKHGLLKGLWLTLKRILRCHPFHKG 68

Query: 118 GFDPVPDDLPPKK 130
           G+DPVP+ L  + 
Sbjct: 69  GYDPVPERLSLRS 81


>gnl|CDD|36398 KOG1184, KOG1184, KOG1184, Thiamine pyrophosphate-requiring enzyme
           [Amino acid transport and metabolism, Coenzyme transport
           and metabolism].
          Length = 561

 Score = 27.9 bits (62), Expect = 0.96
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 113 PLGSDGFDPVPDDLPPKKNNPKLLSK 138
           P+ + G  PVP DL PK +N + L +
Sbjct: 175 PVPAFGLLPVPLDLSPKPSNKEGLEE 200


>gnl|CDD|144107 pfam00389, 2-Hacid_dh, D-isomer specific 2-hydroxyacid
           dehydrogenase, catalytic domain.  This family represents
           the largest portion of the catalytic domain of
           2-hydroxyacid dehydrogenases as the NAD binding domain
           is inserted within the structural domain.
          Length = 313

 Score = 26.9 bits (60), Expect = 2.0
 Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 7/42 (16%)

Query: 42  KSRNWNGKFP-------KTLGRLIGIGIIRIYQLIFSNVFGN 76
           ++ +W    P       KTLG + G GI  I   I   +   
Sbjct: 121 RAGDWKKGGPIGLELRGKTLGVIGGGGIGGIGAAIAKALGMG 162


>gnl|CDD|38830 KOG3624, KOG3624, KOG3624, M13 family peptidase [Amino acid
           transport and metabolism].
          Length = 687

 Score = 26.3 bits (57), Expect = 2.8
 Identities = 18/96 (18%), Positives = 27/96 (28%), Gaps = 4/96 (4%)

Query: 1   MYYECKDSTSSDRYLTTFSQSSYALPIQKKGS-PLLLKNNTPKSRNWNGKFPKTLGRLIG 59
            Y  C D+ + +      +       IQ  G  PLL  N      N N      L R   
Sbjct: 122 FYESCLDAKALESSG---ALQLLFRIIQSIGGWPLLEGNWDESKFNLNEMLANLLRRYGL 178

Query: 60  IGIIRIYQLIFSNVFGNSCRYLPTCSEYGYEAIARY 95
             +  +   +           LP+ S+Y        
Sbjct: 179 TTLFLLEVALDYKNSSQPGLILPSRSKYLATDSDSE 214


>gnl|CDD|144198 pfam00517, GP41, Retroviral envelope protein.  This family includes
           envelope protein from a variety of retroviruses. It
           includes the GP41 subunit of the envelope protein
           complex from human and simian immunodeficiency viruses
           (HIV and SIV) which mediate membrane fusion during viral
           entry. The family also includes bovine immunodeficiency
           virus, feline immunodeficiency virus and Equine
           infectious anaemia (EIAV). The family also includes the
           Gp36 protein from mouse mammary tumour virus (MMTV) and
           human endogenous retroviruses (HERVs).
          Length = 204

 Score = 25.8 bits (57), Expect = 3.8
 Identities = 8/39 (20%), Positives = 14/39 (35%)

Query: 44  RNWNGKFPKTLGRLIGIGIIRIYQLIFSNVFGNSCRYLP 82
            +W       +  L+ I ++RI   +  N       Y P
Sbjct: 151 TSWISYIKIGILILLIIIVLRILPGVLRNCRRVRQGYSP 189


>gnl|CDD|35696 KOG0475, KOG0475, KOG0475, Cl- channel CLC-3 and related proteins
           (CLC superfamily) [Inorganic ion transport and
           metabolism].
          Length = 696

 Score = 25.3 bits (55), Expect = 5.5
 Identities = 10/26 (38%), Positives = 15/26 (57%)

Query: 53  TLGRLIGIGIIRIYQLIFSNVFGNSC 78
             GR +GI + ++ Q    N+FG SC
Sbjct: 435 IAGRAVGIIVEQLAQNPDFNLFGLSC 460


>gnl|CDD|33390 COG3590, PepO, Predicted metalloendopeptidase [Posttranslational
           modification, protein turnover, chaperones].
          Length = 654

 Score = 24.5 bits (53), Expect = 9.6
 Identities = 10/25 (40%), Positives = 12/25 (48%)

Query: 2   YYECKDSTSSDRYLTTFSQSSYALP 26
           +    D   S RY+  FSQS   LP
Sbjct: 136 FSVSPDFKDSTRYVLYFSQSGLGLP 160


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.319    0.140    0.443 

Gapped
Lambda     K      H
   0.267   0.0748    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,860,658
Number of extensions: 94816
Number of successful extensions: 172
Number of sequences better than 10.0: 1
Number of HSP's gapped: 172
Number of HSP's successfully gapped: 12
Length of query: 139
Length of database: 6,263,737
Length adjustment: 84
Effective length of query: 55
Effective length of database: 4,448,581
Effective search space: 244671955
Effective search space used: 244671955
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 (21.7 bits)
S2: 52 (23.8 bits)