RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780793|ref|YP_003065206.1| integral membrane protein MviN
[Candidatus Liberibacter asiaticus str. psy62]
         (518 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 =  272 bits (698), Expect = 1e-73
 Identities = 162/508 (31%), Positives = 279/508 (54%), Gaps = 16/508 (3%)

Query: 2   KIIRNFLTVCASTLGSRFLGFIRETLVAATLGVGKVTDVFYVAFYLTFIFRRLAAEGIFH 61
            ++++ L V   TL SR  GF+R+ ++A+  G G   D F VAF +   FRRL AEG F+
Sbjct: 1   SLLKSTLIVSLGTLFSRITGFVRDAIIASAFGAGLTADAFNVAFVIPNFFRRLFAEGAFN 60

Query: 62  NSFIPLFSQEKENNGSESAQRLSSEIFSILILSLVVLTVVVELILPLLIRFIIAPGFADQ 121
           ++F+P+F++ K+    + A+R  +   + L++  ++L V++ +     +  ++APGFAD 
Sbjct: 61  SAFVPVFTKAKKKE--KEARRAFANTVTTLLILSLLLVVLIGIFFAPFVISLLAPGFAD- 117

Query: 122 SDKYFLTIQLSRVMFPSIIFISLASLVTGMLFALGRYFIASIAPIVINVFPIFALTYALW 181
            +   L + L+R+MFP ++ ISLA++  G+L A  R+FI S +PI+ N+  I +L +  W
Sbjct: 118 -ETRSLAVSLTRIMFPYLLLISLAAVFGGILNARKRFFIPSFSPILFNIGVILSLLFFDW 176

Query: 182 HPSSPQETTYLLAWGVFLSNVVHFWIVYCCAKNDGVKLRFQYPRLTHNVKFFLKLTFPLM 241
             +  Q +  L A GV +  V    I     +  G  L+ ++      +K FLKL  P  
Sbjct: 177 --NYGQYSLAL-AIGVLIGGVAQLLIQLPFLRKAGFLLKPRFNFRDPGLKRFLKLFLPTT 233

Query: 242 VTGGIIQISNIVGRAIASR-ETGIISAIQYAERIYSLPVGVIGGAMMIVILPALSRSLRS 300
           +     QI+ ++  A+AS  E G +SA+ YA RIY LP+G+ G ++  V+LP LSR    
Sbjct: 234 LGSSASQITLLINTALASFLEIGSVSALYYANRIYQLPLGIFGISLSTVLLPKLSRHASE 293

Query: 301 KNKQKSFELQNQAIECISFFGIPSAVALFMLSKEIVQTLYERGAFSSQNTILVSSFLSIY 360
            N  +  +L NQ I       IPS+  L +LS  IV  L+ERGAFS ++T++ ++ L+ Y
Sbjct: 294 GNWNELRDLLNQGIRLSLLLTIPSSFGLLILSIPIVSLLFERGAFSEEDTVMTATILAAY 353

Query: 361 SIGILANILSKSLSTAFYAQNDMKAPMKFTIVSIAINLTIAIGSFPFIGGYGIALAEVSS 420
            +G++   L K L  AFYA+ D + P   +++S+ +N  +++     +G  GIALA  ++
Sbjct: 354 GLGLIFYSLQKVLLRAFYARKDTRTPFINSVISVVLNALLSLLLIFPLGLVGIALATSAA 413

Query: 421 SWVNTICLAITLLKRKQINLPFKTIYRILSVSISAGLMGFFIILFRPYFNQFSSATTFFD 480
           S V+++ L + L +R +  LPF  +  +  + I++ ++G  + L                
Sbjct: 414 SMVSSVLLYLMLNRRLKGILPFGVLKVLAKLVIASAIIGGVLYLIVSVSLGGVL------ 467

Query: 481 PFKNLVIMLS-GAMLVYLFSIFLFLGKD 507
             KNL+ +L+ G + + ++ + L L K 
Sbjct: 468 -VKNLLGLLAIGLIGLLVYFLGLALLKI 494


>gnl|CDD|162043 TIGR00797, matE, putative efflux protein, MATE family.  The MATE
           family consists of probable efflux proteins including a
           functionally characterized multi drug efflux system from
           Vibrio parahaemolyticus, a putative ethionine resistance
           protein of Saccharomyces cerevisiae, and the
           functionally uncharacterized DNA damage-inducible
           protein F (DinF) of E. coli. These proteins have 12
           probable TMS.
          Length = 342

 Score = 38.8 bits (91), Expect = 0.003
 Identities = 36/123 (29%), Positives = 54/123 (43%), Gaps = 12/123 (9%)

Query: 354 SSFLSIYSIGILANILSKSLSTAFYAQNDMKAPMKFTIVSIAINLT---IAI-GSFPFIG 409
             +L I  +GI A +L+  L      Q D K PM  T++   IN+    I I G F F+G
Sbjct: 112 QDYLRILILGIPAYLLNFVLRGFLRGQGDTKTPMYITLIGNVINIILNYILIFGKFGFLG 171

Query: 410 GYGIALAEVSSSWVNTICLAITLLKRKQINL--------PFKTIYRILSVSISAGLMGFF 461
             G ALA V S W+  + L   + K K+I L         ++ + R+L + +        
Sbjct: 172 IVGAALATVISYWLMFLLLLYYIKKAKKIGLKWEGLLKPDWEVLKRLLKLGLPIAFRVIL 231

Query: 462 IIL 464
             L
Sbjct: 232 ESL 234


>gnl|CDD|163065 TIGR02900, spore_V_B, stage V sporulation protein B.  SpoVB is the
           stage V sporulation protein B of the bacterial endopore
           formation program in Bacillus subtilis and various other
           Firmcutes. It is nearly universal among
           endospore-formers. Paralogs with rather high sequence
           similarity to SpoVB exist, including YkvU in B. subtilis
           and a number of proteins in the genus Clostridium.
           Member sequences for the seed alignment were chosen to
           select those proteins, no more than one to a genome,
           closest to B. subtilis SpoVB in a neighbor joining tree.
          Length = 488

 Score = 36.5 bits (85), Expect = 0.016
 Identities = 85/450 (18%), Positives = 166/450 (36%), Gaps = 51/450 (11%)

Query: 78  ESAQRLSSEIFSILILSLVVLTVVVELILPLLIRFIIAPGFADQSDKYFLTIQLSRVMFP 137
            SA+     I  IL +SL+   +   ++  ++  F+++P  A    K   ++    V+ P
Sbjct: 67  ASAKNDRKNIKKILKVSLIFTLIWSLIVTAIV--FLLSPFIASTLLKDERSLYSLLVICP 124

Query: 138 SIIFISLASLVTGMLFALGRYFIASIAPIVINVFPIF--ALTYALWHPSSPQETTYLLAW 195
           ++ FI+L+S++ G    +      +   ++  +  I   AL  + + P   +        
Sbjct: 125 AMPFIALSSVLKGYFQGISNMKPPAYIQVIEQIVRISVVALLISAFLPYGLEYAVAGAYL 184

Query: 196 GVFLSNVVHFWIVYCCAK-NDGVKLRFQYPRLTHNVKFFLK----LTFPLMVTGGIIQIS 250
            + L  +V    +Y   K      +RF +       K  L     ++ PL ++  I  + 
Sbjct: 185 SLVLGELVSLLYLYFFFKRKKSFSIRFPFFDYKSEGKALLFDLFSVSLPLTLSRFIGSLL 244

Query: 251 NI--------------VGRAIASRETGIISAIQYAERIYSLPVGVIGGAMMIVILPALSR 296
                           V    A+   G +S    A  + + P  VI  ++   ++P +S 
Sbjct: 245 YFLETLLVPQRLVIAGVTYREATSLYGKLSG--MAMPLLTFPA-VITSSLSTALVPDISE 301

Query: 297 SLRSKNKQKSFELQNQAIECISFFGIPSAVALFMLSKEIVQTLYERGAFSSQNTILVSSF 356
           ++  KN     +  NQAI+     G+ + V L ++  E+    Y R    +   +L  SF
Sbjct: 302 AMAKKNYSSIEKRINQAIKISLLLGLITTVILLVIPDELGALFYGRPDAGNFIRVLAPSF 361

Query: 357 LSIYSIGILANILSKSLSTAFYAQNDMKAPMKFT-IVSIA-INLTIAIGSFPFIGGYGIA 414
             +Y    L +IL              K  ++ + I +I  I L   + S P I  YG A
Sbjct: 362 PFLYFSAPLQSILQ--------GLGKQKVALRNSLIGAIVKIILLFVLTSIPSINIYGYA 413

Query: 415 LAEVSSSWVNTICLAITLLKRKQINLPFKTIYRILSVSISAGLMGFFIILFRPYFNQFSS 474
           +  + +S + TI     + K  +I +          + I      +  +           
Sbjct: 414 ITFIITSVLVTILNLAEIKKNIRITIDLSDFLIFALLGIL----VYLGLSLL-----KYI 464

Query: 475 ATTFFDPFKNLVIMLSGAMLVYLFSIFLFL 504
                     L+I++ G      FS+++ L
Sbjct: 465 IFNPNILINLLLIIILG------FSLYILL 488


>gnl|CDD|178539 PLN02953, PLN02953, phosphatidate cytidylyltransferase.
          Length = 403

 Score = 29.2 bits (65), Expect = 2.7
 Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 15/82 (18%)

Query: 394 IAINLTIAIGSFPFIGGYGIALAEVSS-----SWVNTI-----CLAITLLKRKQINLPFK 443
           I+ +  IA  +F F+GG       ++S     +W  T      C+AIT+L  K ++ P  
Sbjct: 273 ISFSGVIATDTFAFLGGKAFGRTPLTSISPKKTWEGTFVGLVGCIAITILLSKSLSWP-- 330

Query: 444 TIYRILSVSISAGLMGFFIILF 465
              + L  SI+ G + FF  +F
Sbjct: 331 ---QSLFSSIAFGFLNFFGSVF 349


>gnl|CDD|184034 PRK13405, bchH, magnesium chelatase subunit H; Provisional.
          Length = 1209

 Score = 28.1 bits (63), Expect = 5.6
 Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 2/25 (8%)

Query: 106 LPLLIRFIIAPGFADQSDKYFLTIQ 130
           LP ++RFI  PG A     YFLT+Q
Sbjct: 155 LPKILRFI--PGTAQDVRAYFLTLQ 177


>gnl|CDD|178898 PRK00143, mnmA, tRNA-specific 2-thiouridylase MnmA; Reviewed.
          Length = 346

 Score = 28.1 bits (64), Expect = 6.3
 Identities = 10/22 (45%), Positives = 15/22 (68%), Gaps = 6/22 (27%)

Query: 120 DQSDKYFL-TI---QLSRVMFP 137
           DQS  YFL  +   QL++++FP
Sbjct: 143 DQS--YFLYQLTQEQLAKLLFP 162


>gnl|CDD|151619 pfam11177, DUF2964, Protein of unknown function (DUF2964).  This
           family of proteins with unknown function appears to be
           restricted to Proteobacteria.
          Length = 62

 Score = 27.7 bits (62), Expect = 6.6
 Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 133 RVMFPSI-IFISLASL---VTGMLFALGRYFIASIAPIVINV 170
           R++  +I +FI+LA +   + G+LF L R F   +  ++I V
Sbjct: 7   RIVLATIAVFIALAGIAGVIHGLLFDLERAFRYGVIALIIGV 48


>gnl|CDD|162057 TIGR00832, acr3, arsenical-resistance protein.  The first protein
           of the ACR3 family functionally characterized was the
           ACR3 protein of Saccharomyces cerevisiae. It is present
           in the yeast plasma membrane and pumps arsenite out of
           the cell in response to the pmf. Similar proteins are
           found in bacteria, often as part of a four gene operon
           with an regulatory protein ArsR, a protein of unknown
           function ArsH, and an arsenate reductase that converts
           arsenate to arsenite to facilitate transport.
          Length = 328

 Score = 27.7 bits (62), Expect = 6.9
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 10/93 (10%)

Query: 96  VVLTVVVELILPLLIRFIIAPGFADQSDKYFLTIQLSRVMFPSIIFISLASLVTGMLFAL 155
           +  +V++ L +PL+   +       +  + +        + P  +   L ++V  +LFA 
Sbjct: 176 IAKSVLIYLGIPLIAGILTRYWLLKRKGREWYEKVFLPKISPWSLIALLFTIV--LLFAF 233

Query: 156 -GRYFIASI-------APIVINVFPIFALTYAL 180
            G   I           P++I  + +F LT+AL
Sbjct: 234 QGETIIELPLDIALIAIPLLIYFYIMFFLTFAL 266


>gnl|CDD|130174 TIGR01104, V_PPase, vacuolar-type H(+)-translocating
           pyrophosphatase.  This model describes proton
           pyrophosphatases from eukaryotes (predominantly plants),
           archaea and bacteria. It is an integral membrane protein
           and is suggested to have about 15 membrane spanning
           domains. Proton translocating inorganic pyrophosphatase,
           like H(+)-ATPase, acidifies the vacuoles and is pivotal
           to the vacuolar secondary active transport systems in
           plants.
          Length = 697

 Score = 27.4 bits (61), Expect = 8.2
 Identities = 16/44 (36%), Positives = 19/44 (43%)

Query: 387 MKFTIVSIAINLTIAIGSFPFIGGYGIALAEVSSSWVNTICLAI 430
            K  I+ I       I SF F G YGIA+A +         LAI
Sbjct: 392 YKSVIIPIFAIAASIIVSFSFAGMYGIAMAALGMLSTAGTGLAI 435


>gnl|CDD|179593 PRK03557, PRK03557, zinc transporter ZitB; Provisional.
          Length = 312

 Score = 27.4 bits (61), Expect = 8.3
 Identities = 11/52 (21%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 159 FIASIAPIVINVFPIFALTYALWHPSSPQETTYLL-AWGVFLSNVVHFWIVY 209
           F+ +IA +VI +  ++        P        +  A    L+N++ FW+++
Sbjct: 92  FVNAIALVVITILIVWEAIERFRTPRPVAGGMMMAIAVAGLLANILSFWLLH 143


>gnl|CDD|185579 PTZ00370, PTZ00370, STEVOR; Provisional.
          Length = 296

 Score = 27.3 bits (61), Expect = 8.9
 Identities = 24/107 (22%), Positives = 41/107 (38%), Gaps = 18/107 (16%)

Query: 10  VCASTLGSRFLGFIRETLVAATLGVGKVTDVFYVAFYLTFIFRRLAAEGIFHNSFIPLFS 69
           +C+ +LGS  L  I   L AA     K   +  +A + T   +  ++  IF+        
Sbjct: 176 ICSCSLGSALLTLI--GLAAA-----KAAAIALIASFGTSYSKCASSISIFNMLSEESII 228

Query: 70  QEKENNGSESAQRLSSEI----------FSILILSLVVLTVVVELIL 106
              +  G      L+             + I  L L++L VV+ +IL
Sbjct: 229 SALKAGGVTCVSGLAGTAASAASSAFYPYGIAALVLLILAVVL-IIL 274


>gnl|CDD|177916 PLN02277, PLN02277, H(+) -translocating inorganic pyrophosphatase.
          Length = 730

 Score = 27.5 bits (61), Expect = 9.0
 Identities = 19/56 (33%), Positives = 28/56 (50%), Gaps = 12/56 (21%)

Query: 454 SAGLMGFFIILFRPYFNQFSSATTFFDPFKNLVIM--------LSGAMLVYLFSIF 501
           SA L  F  +LF  Y ++ S+      PFK + I         L G+ML++LFS +
Sbjct: 509 SAALASF--LLFSAYMDEVSAFAGV--PFKEVDIAIPEVFVGGLLGSMLIFLFSAW 560


  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
   0.330    0.142    0.412 

Gapped
Lambda     K      H
   0.267   0.0726    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 8,346,780
Number of extensions: 559551
Number of successful extensions: 1841
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1820
Number of HSP's successfully gapped: 111
Length of query: 518
Length of database: 5,994,473
Length adjustment: 98
Effective length of query: 420
Effective length of database: 3,876,889
Effective search space: 1628293380
Effective search space used: 1628293380
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 (21.9 bits)
S2: 59 (26.5 bits)