RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780607|ref|YP_003065020.1| hypothetical protein
CLIBASIA_02470 [Candidatus Liberibacter asiaticus str. psy62]
         (131 letters)



>gnl|CDD|33550 COG3755, COG3755, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 127

 Score = 66.2 bits (161), Expect = 3e-12
 Identities = 30/122 (24%), Positives = 51/122 (41%), Gaps = 3/122 (2%)

Query: 1   MCRKIIFALTIIAIAFQSM-ALNCNETLMQADMNQ-CTGNSFALVKEKLEATYKKVLEKV 58
           +    +   T+   A     A +C     Q D N  C G  +     +L   YK +L+++
Sbjct: 5   VAPLALLLATLALSATSQSAADDCCRASPQFDSNYDCAGQEYQAADAELNKAYKALLKRL 64

Query: 59  EKHQRE-LFEKSQMAWEIYRGSECAFAASGAEEGTAQSMIYANCLQGHAIERNEKLESYL 117
           +   R    +K+Q AW  +R ++CA   S  + G+   M   +CL     +R  +LE  L
Sbjct: 65  QDSPRTKALQKAQRAWIAFRDADCALIKSQLDGGSIAPMEVLSCLLDLTNQRTAELEELL 124

Query: 118 TC 119
             
Sbjct: 125 QP 126


>gnl|CDD|31106 COG0763, LpxB, Lipid A disaccharide synthetase [Cell envelope
           biogenesis, outer membrane].
          Length = 381

 Score = 28.3 bits (63), Expect = 0.69
 Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 1/48 (2%)

Query: 40  FALVKEKLEATYKKVLEKVEKHQRELFEKSQMAWEIYRGSECAFAASG 87
             LV  K     ++ L K E     L        + +  ++ A AASG
Sbjct: 227 LPLVNAKYRRIIEEAL-KWEVAGLSLILIDGEKRKAFAAADAALAASG 273


>gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 782

 Score = 27.8 bits (62), Expect = 0.81
 Identities = 10/20 (50%), Positives = 15/20 (75%)

Query: 52  KKVLEKVEKHQRELFEKSQM 71
           KKV E++EK QRE + + Q+
Sbjct: 216 KKVKEQMEKSQREYYLREQL 235


>gnl|CDD|111570 pfam02684, LpxB, Lipid-A-disaccharide synthetase.  This is a family
           of lipid-A-disaccharide synthetases, EC:2.4.2.128. These
           enzymes catalyse the reaction:
           UDP-2,3-bis(3-hydroxytetradecanoyl) glucosamine +
           2,3-bis(3-hydroxytetradecanoyl)-beta-D-glucosaminyl
           1-phosphate <=> UDP +
           2,3-bis(3-hydroxytetradecanoyl)-D-glucosaminyl-1,6
           -beta-D-2,
           3-bis(3-hydroxytetradecanoyl)-beta-D-glucosaminyl
           1-phosphate. These enzymes catalyse the fist
           disaccharide step in the synthesis of
           lipid-A-disaccharide.
          Length = 373

 Score = 27.7 bits (62), Expect = 1.0
 Identities = 18/80 (22%), Positives = 25/80 (31%), Gaps = 12/80 (15%)

Query: 8   ALTIIAIAFQSMALNCNETLMQADMNQCTGNSFALVKEKLEATYKKVLEKVEKHQRELFE 67
              I   A Q  +   N  L+             LV +K E   +  L         L E
Sbjct: 202 LPPIQVAAQQLSSQFPNLKLL-----------VPLVNKKYEEQIEDTLALENC-DVSLLE 249

Query: 68  KSQMAWEIYRGSECAFAASG 87
            S   +E    ++ A A SG
Sbjct: 250 ISGERYEAMFAADAALAKSG 269


>gnl|CDD|146739 pfam04257, Exonuc_V_gamma, Exodeoxyribonuclease V, gamma subunit.
           The Exodeoxyribonuclease V enzyme is a multi-subunit
          enzyme comprised of the proteins RecB, RecC (this
          family) and RecD. This enzyme plays an important role
          in homologous genetic recombination, repair of double
          strand DNA breaks resistance to UV irradiation and
          chemical DNA-damage. The enzyme (EC:3.1.11.5) catalyses
          ssDNA or dsDNA-dependent ATP hydrolysis, hydrolysis of
          ssDNA or dsDNA and unwinding of dsDNA. This family
          consists of two AAA domains.
          Length = 1008

 Score = 26.8 bits (60), Expect = 1.9
 Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 2/31 (6%)

Query: 47 LEATYKKVLEKVEKHQRELFEKSQMAWEIYR 77
          +   ++ VL  V +     F K  + W + R
Sbjct: 69 IWQLFRAVLGDVPE--ESPFSKESLTWRLMR 97


>gnl|CDD|145098 pfam01763, Herpes_UL6, Herpesvirus UL6 like.  This family consists
           of various proteins from the herpesviridae that are
           similar to herpes simplex virus type I UL6 virion
           protein. UL6 is essential for cleavage and packaging of
           the viral genome.
          Length = 551

 Score = 26.4 bits (59), Expect = 2.1
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 4/46 (8%)

Query: 21  LNCNETLMQADMNQCTGNSF---ALVKEKLEATYKKVLEKVEKHQR 63
           L C+     A + Q   N+     LV  + E  YK+++EK+EK  +
Sbjct: 241 LACHRLREHAKLCQLL-NTAPVKVLVGSRHEDGYKRIVEKLEKESK 285


>gnl|CDD|35723 KOG0502, KOG0502, KOG0502, Integral membrane ankyrin-repeat protein
           Kidins220 (protein kinase D substrate) [General function
           prediction only].
          Length = 296

 Score = 26.2 bits (57), Expect = 2.8
 Identities = 15/64 (23%), Positives = 32/64 (50%), Gaps = 2/64 (3%)

Query: 9   LTIIAIAFQSMALNCNETLMQ--ADMNQCTGNSFALVKEKLEATYKKVLEKVEKHQRELF 66
            T +  A +   + C E+L+   AD+ Q   + + ++   +   Y+ V + +EKH  +L 
Sbjct: 227 GTPLLYAVRGNHVKCVESLLNSGADVTQEDDSGYWIMDLAVALGYRIVQQVIEKHALKLC 286

Query: 67  EKSQ 70
           + S+
Sbjct: 287 QDSE 290


>gnl|CDD|132827 cd07294, PX_SNX12, The phosphoinositide binding Phox Homology
           domain of Sorting Nexin 12.  The PX domain is a
           phosphoinositide (PI) binding module present in many
           proteins with diverse functions. Sorting nexins (SNXs)
           make up the largest group among PX domain containing
           proteins. They are involved in regulating membrane
           traffic and protein sorting in the endosomal system. The
           PX domain of SNXs binds PIs and targets the protein to
           PI-enriched membranes. SNXs differ from each other in
           PI-binding specificity and affinity, and the presence of
           other protein-protein interaction domains, which help
           determine subcellular localization and specific function
           in the endocytic pathway. Some SNXs are localized in
           early endosome structures such as clathrin-coated pits,
           while others are located in late structures of the
           endocytic pathway. The specific function of SNX12 has
           yet to be elucidated.
          Length = 132

 Score = 25.0 bits (54), Expect = 6.2
 Identities = 12/37 (32%), Positives = 18/37 (48%)

Query: 76  YRGSECAFAASGAEEGTAQSMIYANCLQGHAIERNEK 112
           +RG E  F  S  EE       + N + GH + +NE+
Sbjct: 78  FRGDEGIFEESFIEERRQGLEQFINKIAGHPLAQNER 114


>gnl|CDD|38960 KOG3756, KOG3756, KOG3756, Pinin (desmosome-associated protein)
           [Cytoskeleton].
          Length = 340

 Score = 25.0 bits (54), Expect = 6.7
 Identities = 10/26 (38%), Positives = 19/26 (73%)

Query: 43  VKEKLEATYKKVLEKVEKHQRELFEK 68
           +++KLE   ++  E++EK +REL E+
Sbjct: 172 IEQKLEEQAEEEREQLEKQERELLEE 197


>gnl|CDD|146643 pfam04113, Gpi16, Gpi16 subunit, GPI transamidase component.  GPI
           (glycosyl phosphatidyl inositol) transamidase is a
           multi-protein complex. Gpi16, Gpi8 and Gaa1 for a
           sub-complex of the GPI transamidase. GPI transamidase
           that adds glycosylphosphatidylinositols (GPIs) to newly
           synthesized proteins. Gpi16 is an essential
           N-glycosylated transmembrane glycoprotein. Gpi16 is
           largely found on the lumenal side of the ER. It has a
           single C-terminal transmembrane domain and a small
           C-terminal, cytosolic extension with an ER retrieval
           motif.
          Length = 563

 Score = 25.1 bits (55), Expect = 6.8
 Identities = 8/15 (53%), Positives = 11/15 (73%)

Query: 5   IIFALTIIAIAFQSM 19
           II   T+IA+AF S+
Sbjct: 514 IILTSTVIALAFGSI 528


>gnl|CDD|147038 pfam04682, Herpes_BTRF1, Herpesvirus BTRF1 protein conserved
           region.  Herpesvirus protein.
          Length = 256

 Score = 25.0 bits (55), Expect = 7.0
 Identities = 10/21 (47%), Positives = 11/21 (52%)

Query: 48  EATYKKVLEKVEKHQRELFEK 68
           E  Y  VL  V + Q E FEK
Sbjct: 132 EQLYGPVLPPVSEDQVEFFEK 152


>gnl|CDD|35668 KOG0447, KOG0447, KOG0447, Dynamin-like GTP binding protein
           [General function prediction only].
          Length = 980

 Score = 24.7 bits (53), Expect = 8.5
 Identities = 7/20 (35%), Positives = 14/20 (70%)

Query: 46  KLEATYKKVLEKVEKHQREL 65
             +  Y+++LE++EK  +EL
Sbjct: 244 HTQLKYQRILERLEKENKEL 263


>gnl|CDD|38040 KOG2829, KOG2829, KOG2829, E2F-like protein [Transcription].
          Length = 326

 Score = 24.6 bits (53), Expect = 8.8
 Identities = 8/23 (34%), Positives = 12/23 (52%)

Query: 107 IERNEKLESYLTCPEGDLLCPFI 129
           ++RN   ES    P  ++  PFI
Sbjct: 169 VQRNRHAESQGQPPSENIHLPFI 191


>gnl|CDD|32653 COG2825, HlpA, Outer membrane protein [Cell envelope biogenesis,
          outer membrane].
          Length = 170

 Score = 24.5 bits (53), Expect = 8.9
 Identities = 17/73 (23%), Positives = 35/73 (47%), Gaps = 2/73 (2%)

Query: 1  MCRKIIFALTIIAIAFQSMALNCNETLMQADMNQCTGNSFA--LVKEKLEATYKKVLEKV 58
          M ++++ AL  +A+A  + A      +   ++ +    S     V   LE+ +KK  +++
Sbjct: 1  MKKRLLAALLGLALATSASAAQAAPKIAIVNLGRIFQESPQAKKVSADLESEFKKRQKEL 60

Query: 59 EKHQRELFEKSQM 71
          +K Q+EL  K   
Sbjct: 61 QKMQKELKAKEAK 73


  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
   0.320    0.131    0.386 

Gapped
Lambda     K      H
   0.267   0.0719    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,450,799
Number of extensions: 61527
Number of successful extensions: 218
Number of sequences better than 10.0: 1
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 20
Length of query: 131
Length of database: 6,263,737
Length adjustment: 83
Effective length of query: 48
Effective length of database: 4,470,190
Effective search space: 214569120
Effective search space used: 214569120
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 (21.9 bits)
S2: 52 (23.8 bits)