RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780579|ref|YP_003064992.1| hypothetical protein
CLIBASIA_02330 [Candidatus Liberibacter asiaticus str. psy62]
         (207 letters)



>gnl|CDD|99750 cd06259, YdcF-like, YdcF-like. YdcF-like is a large family of
           mainly bacterial proteins, with a few members found in
           fungi, plants, and archaea. Escherichia coli YdcF has
           been shown to bind S-adenosyl-L-methionine (AdoMet), but
           a biochemical function has not been idenitified. The
           family also includes Escherichia coli sanA and
           Salmonella typhimurium sfiX,  which are involved in
           vancomycin resistance; sfiX may also be involved in
           murein synthesis..
          Length = 150

 Score = 95.1 bits (237), Expect = 1e-20
 Identities = 40/154 (25%), Positives = 66/154 (42%), Gaps = 18/154 (11%)

Query: 39  AIVVLTGEPI----------RIERAFELLENQIGEKIFISGV---HHSVSKDILLQKIPI 85
           AIVVL G             R++ A EL       K+ +SG        S+   + +  I
Sbjct: 2   AIVVLGGGVNGDGPSPILAERLDAAAELYRAGPAPKLIVSGGQGPGEGYSEAEAMARYLI 61

Query: 86  RQDLAECCIDIGYKALNTEGNAQEASAWAEKNNFHHVLIVTHDYHMPRTFLELQRINSTV 145
              +    I +  ++ NT  NA+ ++    +     VL+VT  YHMPR  L  ++    V
Sbjct: 62  ELGVPAEAILLEDRSTNTYENARFSAELLRERGIRSVLLVTSAYHMPRALLIFRKAGLDV 121

Query: 146 QFIPYPIISHDLEENSSIFKIKILRVLLIEYLKI 179
           + +P P   + L        +++LR+ L EYL +
Sbjct: 122 EVVPAPTDFYSLSSA-----LRLLRLALREYLGL 150


>gnl|CDD|145708 pfam02698, DUF218, DUF218 domain.  This large family of proteins
           contains several highly conserved charged amino acids,
           suggesting this may be an enzymatic domain (Bateman A
           pers. obs). The family includes SanA, which is involved
           in Vancomycin resistance. This protein may be involved
           in murein synthesis.
          Length = 148

 Score = 85.4 bits (212), Expect = 9e-18
 Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 12/149 (8%)

Query: 39  AIVVLTGEPI-----RIERAFELLENQIGEKIFISG---VHHSVSKDILLQKIPIRQDLA 90
           AIVVL G        R++ A EL       +I +SG       VS+  ++++  +   + 
Sbjct: 4   AIVVL-GGGSPALAARLDAAAELYRAGPAPRIIVSGGAGGGEPVSEAEVMRRYLVELGVP 62

Query: 91  ECCIDIGYKALNTEGNAQEASAWAEKNNFHHVLIVTHDYHMPRTFLELQRINSTVQFIPY 150
              I +  ++ NT  NA+ ++    +     VL+VT  +HM R  L  +R    V  +P 
Sbjct: 63  AEAILLEPQSRNTYENARFSAELLRERGLRRVLLVTSAFHMRRALLLFRRAGPEVVPVPA 122

Query: 151 PIISHDLEENSSIFKIKILRVLLIEYLKI 179
              +           +++ R  L EYL +
Sbjct: 123 DYPTPL---PPRALWLRLARAALREYLGL 148


>gnl|CDD|31623 COG1434, COG1434, Uncharacterized conserved protein [Function
           unknown].
          Length = 223

 Score = 66.7 bits (162), Expect = 5e-12
 Identities = 34/158 (21%), Positives = 64/158 (40%), Gaps = 6/158 (3%)

Query: 5   WYGLFVCLIFFIMGFISFIRYVKQMHIPDHPSVSAIVVLTGEPIRIERAFELLEN--QIG 62
              L +  +  + GF+      +       P ++  +V+ G   R+      L    ++ 
Sbjct: 32  LIILLLAALLILGGFLLRPLEARSAAALLLPGLADAIVVLGGGSRLTDHLIRLLEAARLA 91

Query: 63  EKIFISGVHHS--VSKDILLQKIPIRQDLAECCIDIGYKALNTEGNAQEASAWAEKNNFH 120
           + + ISGV  S  V +    ++      +    I +  ++ NT  NA+ +          
Sbjct: 92  KILPISGVLESGGVIEIQATRRYLENLGVPAERIILEDRSRNTVENARFSRRLLRTQGPE 151

Query: 121 HVLIVTHDYHMPRTFLELQRINSTVQFIPYPIISHDLE 158
            V++VT  YHMPR  L  +++  +V  IPYP+   D  
Sbjct: 152 SVILVTSPYHMPRALLLFRKLGISV--IPYPVGFLDRN 187


>gnl|CDD|146239 pfam03486, HI0933_like, HI0933-like protein. 
          Length = 405

 Score = 31.0 bits (71), Expect = 0.27
 Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 15/70 (21%)

Query: 56  LLE--NQIGEKIFISG-----VHHSVSKDILLQKIPIRQDLAECCIDIGYKALNTEGNAQ 108
           L+E   ++G KI ISG     V +SV  D  L + P               AL+      
Sbjct: 28  LIEKGKKLGRKILISGGGRCNVTNSVEPDNFLSRYPGNP--HFL-----KSALSRFTP-W 79

Query: 109 EASAWAEKNN 118
           +  AW E+  
Sbjct: 80  DFIAWFEELG 89


>gnl|CDD|39844 KOG4645, KOG4645, KOG4645, MAPKKK (MAP kinase kinase kinase) SSK2 and
            related serine/threonine protein kinases [Signal
            transduction mechanisms].
          Length = 1509

 Score = 30.4 bits (68), Expect = 0.39
 Identities = 21/102 (20%), Positives = 31/102 (30%), Gaps = 3/102 (2%)

Query: 57   LENQIGEKIFISGVHHSV--SKDIL-LQKIPIRQDLAECCIDIGYKALNTEGNAQEASAW 113
               Q   +I I G        K ++ L +  IRQ + +  I   Y  L  E        W
Sbjct: 980  ALYQYDREIQIQGYSFGFEYHKSVVRLMEGEIRQKINKAYIRFAYVVLKCESGRGTRPRW 1039

Query: 114  AEKNNFHHVLIVTHDYHMPRTFLELQRINSTVQFIPYPIISH 155
            A + N     I          FL L    +        ++ H
Sbjct: 1040 ASQGNEFLNAIFAFGRDFGDDFLRLNAFMNECISHVIGLMPH 1081


>gnl|CDD|38405 KOG3195, KOG3195, KOG3195, Uncharacterized membrane protein
           NPD008/CGI-148 [General function prediction only].
          Length = 213

 Score = 28.4 bits (63), Expect = 1.5
 Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 1/25 (4%)

Query: 2   RYFWYGLFVC-LIFFIMGFISFIRY 25
           R FW GL++C +I+ I    +  R+
Sbjct: 123 RIFWLGLYLCPVIWIIFAVFALFRF 147


>gnl|CDD|39609 KOG4408, KOG4408, KOG4408, Putative Mg2+ and Co2+ transporter CorD
           [Inorganic ion transport and metabolism].
          Length = 386

 Score = 26.9 bits (59), Expect = 4.4
 Identities = 27/126 (21%), Positives = 47/126 (37%), Gaps = 20/126 (15%)

Query: 64  KIFISGVHHSVSKDIL----LQKIPIRQDLAECCIDIGYKALNTEGNAQEAS--AWAEKN 117
           K  I G+ +   +DIL     + +P + +L +   D+            + +  AW E  
Sbjct: 180 KYAIPGLDYVSHEDILPYTSSEAVPGQHELFDQFPDLARDPAAIPPFVIQDTLTAWQESK 239

Query: 118 NFHHVLIVTHDYHMPRT----------FL-ELQRINSTVQFIPYPI-ISHDLEENSSIFK 165
           N  H  +   D H   T          +L E   ++  V +  Y I I + L E S   +
Sbjct: 240 N--HGWLPIRDVHRETTENIRVTVSTFYLGERSSVHPPVYWWRYCIRIENALPEKSVQLR 297

Query: 166 IKILRV 171
            +  R+
Sbjct: 298 ERHWRI 303


>gnl|CDD|99799 cd06202, Nitric_oxide_synthase, The ferredoxin-reductase (FNR) like
           C-terminal domain of the nitric oxide synthase (NOS)
           fuses with a heme-containing N-terminal oxidase domain.
           The reductase portion is similar in structure to NADPH
           dependent cytochrome-450 reductase (CYPOR), having an
           inserted connecting sub-domain within the FAD binding
           portion of FNR. NOS differs from CYPOR in a requirement
           for the cofactor tetrahydrobiopterin and unlike most
           CYPOR is dimeric. Nitric oxide synthase produces nitric
           oxide in the conversion of L-arginine to L-citruline.
           NOS has been implicated in a variety of processes
           including cytotoxicity, anti-inflamation,
           neurotransmission, and vascular smooth muscle
           relaxation..
          Length = 406

 Score = 25.8 bits (57), Expect = 9.7
 Identities = 13/33 (39%), Positives = 18/33 (54%)

Query: 22  FIRYVKQMHIPDHPSVSAIVVLTGEPIRIERAF 54
           F+R     H+P+ PSV  I+V  G  I   R+F
Sbjct: 232 FVRSAPSFHLPEDPSVPVIMVGPGTGIAPFRSF 264


  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
   0.328    0.142    0.420 

Gapped
Lambda     K      H
   0.267   0.0746    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,542,674
Number of extensions: 133121
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 683
Number of HSP's successfully gapped: 36
Length of query: 207
Length of database: 6,263,737
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,340,536
Effective search space: 512183248
Effective search space used: 512183248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (24.9 bits)