RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780662|ref|YP_003065075.1| NAD-glutamate dehydrogenase
[Candidatus Liberibacter asiaticus str. psy62]
         (1576 letters)



>gnl|CDD|185555 PTZ00324, PTZ00324, glutamate dehydrogenase 2; Provisional.
          Length = 1002

 Score = 99.5 bits (248), Expect = 6e-21
 Identities = 143/572 (25%), Positives = 226/572 (39%), Gaps = 88/572 (15%)

Query: 614  FKYIFHERVDNDSFNHLIML---TDLRVYEISVLRSYARYLRQASVTWSQNFIARVLSKN 670
            F + F      D + HL  L       V  ++ LR+     R     +S+ +I   ++  
Sbjct: 334  FAFHFTPSPTTDDYRHLEALLAKEPNGVSRLNNLRT-----RLTQEVFSERYIGEAIALY 388

Query: 671  PTISQLLFSLFRYRFDPSLSDQERGENTKRILGEIDSALLK--VPSLDDDTVLRSYVNLI 728
            P   +LL+  FR    P      R   T++I    ++A LK  + +  D T+  ++++  
Sbjct: 389  PEFVKLLYEDFRLGHTPE----RRAAITQKIE---ETARLKEDIRNELDRTIFSAFLSFN 441

Query: 729  SGTLRTNYFQKNQDDIALVFKFDSRKINSVGTDEL-HREIFVYGVEVEGVHLRCGKIARG 787
               L+TN+++   +  AL F+ D   ++ +    + +    V G +  G H+R   IARG
Sbjct: 442  EHILKTNFYK--TEKTALAFRLDPSFLSELEYPRVPYGVFLVAGAQFRGFHIRFTDIARG 499

Query: 788  GLRW--SDRAADYRT-------EVLGLVRAQKVKNAVIVPVGAKGGFYPKRLPSEGRRDE 838
            G+R   S +   YR        E   L   Q +KN  I   G+KG      L S      
Sbjct: 500  GVRMIQSFKEQAYRRNKRSVFDENYNLASTQLLKNKDIPEGGSKGTIL---LSSRYLNKF 556

Query: 839  IIKIGREAYKTYVRALLS-------ITDNFEGQEIIHPDNTVCLDGNDPYFVVAADKGTA 891
                 + A+  Y+ ALL        + D+ + +EII              F+   +  T 
Sbjct: 557  AQVRCQHAFLQYIDALLDVMLPGEKVVDHLKQEEII--------------FLGPDEHTTG 602

Query: 892  TFSDTANILAQEAKFWLDDAFASGGSM---GYDHKKMGITARGAWETV-----KRHFREM 943
            T  D A + A++  +    +F +G S    G  H   G+T R     V     K    E 
Sbjct: 603  TLMDWAALHAKKRGYPFWKSFTTGKSPSMGGIPHDTYGMTTRSVRAYVTGILEKLGLNEE 662

Query: 944  DIDIQSTPFTVAGVGDMSGDVFGNGMLLSRKIQLVAAFDHSDIFIDPDPNSETTFDERKR 1003
            ++    T F   G     GD+  N +LLS K + V   D S +  DP+       +E +R
Sbjct: 663  EV----TKFQTGGP---DGDLGSNELLLS-KEKTVGIVDGSGVLHDPE---GLNREELRR 711

Query: 1004 LFDSPSSSWQDFDRKVLSKGGMIISRKEKAVQLTPEAVAVIGISKQIATPSEIISAI-LM 1062
            L        ++FD   LS  G ++   ++ V+L P+   V        +     +   L+
Sbjct: 712  L-AHHRLPAREFDESKLSPQGFLVLTDDRDVKL-PDGTIV-------ESGLRFRNEFHLL 762

Query: 1063 ASVDLLWFGGIGTYIRAPRENNADIGDKGNNILRVTADKVRAKVIGEGANLGLTQQARVV 1122
               D   F   G   R+    N                K+R K+I EGANL +TQ AR+ 
Sbjct: 763  PYSDADVFVPCGGRPRSVTLFNVG------RFFDEKNGKLRFKIIVEGANLFITQDARLA 816

Query: 1123 YSLNGGRINSDAIDNSGGVNCSDLEVNIKIAL 1154
                G  +  DA  N GGV  S LEV   +AL
Sbjct: 817  LEECGVILFKDASANKGGVTSSSLEVLAALAL 848


>gnl|CDD|129072 smart00839, ELFV_dehydrog, Glutamate/Leucine/Phenylalanine/Valine
            dehydrogenase.  Glutamate, leucine, phenylalanine and
            valine dehydrogenases are structurally and functionally
            related. They contain a Gly-rich region containing a
            conserved Lys residue, which has been implicated in the
            catalytic activity, in each case a reversible oxidative
            deamination reaction.
          Length = 102

 Score = 44.5 bits (106), Expect = 2e-04
 Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 8/91 (8%)

Query: 1091 GNNILRVTADKVRAKVIGEGANLGLTQQARVVYSLNGGRINSDAIDNSGGVNCSDLEVNI 1150
             N I    A+++ AK+I EGAN+ LT +A  +    G     D   N+GGV  S LE+  
Sbjct: 12   QNVINEANANRLGAKIIAEGANMPLTDEADDILEDRGVLYAPDFAANAGGVIVSALEMLQ 71

Query: 1151 KIALASAMRDGRLTLENRNKLLSSMTSEVVE 1181
             +A  +         E    L   M + + E
Sbjct: 72   NLARTAE--------EVFTDLSEIMRNALEE 94


>gnl|CDD|178095 PLN02477, PLN02477, glutamate dehydrogenase.
          Length = 410

 Score = 34.4 bits (79), Expect = 0.25
 Identities = 20/57 (35%), Positives = 25/57 (43%)

Query: 1091 GNNILRVTADKVRAKVIGEGANLGLTQQARVVYSLNGGRINSDAIDNSGGVNCSDLE 1147
            G  I +  A  V+AK I E AN     +A  +    G  +  D   NSGGV  S  E
Sbjct: 291  GGVINKENAADVKAKFIVEAANHPTDPEADEILRKKGVVVLPDIYANSGGVTVSYFE 347


>gnl|CDD|151130 pfam10602, RPN7, 26S proteasome subunit RPN7.  RPN7 (known as the non
            ATPase regulatory subunit 6 in higher eukaryotes) is one
            of the lid subunits of the 26S proteasome and has been
            shown in Saccharomyces cerevisiae to be required for
            structural integrity. The 26S proteasome is is involved
            in the ATP-dependent degradation of ubiquitinated
            proteins.
          Length = 174

 Score = 32.9 bits (76), Expect = 0.63
 Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 22/95 (23%)

Query: 1354 QEVDKLDNQISGELQNKIYEEIRLIFINLTRLLIKNGKF---IGDIGNAVKRL------- 1403
            +E+++LD ++    +N   EEIR          +  G+    IGD+ NA+K         
Sbjct: 14   EELEELDAELKDAKENLGKEEIR-------MANLDLGEHYAKIGDLENALKAYSRAREYC 66

Query: 1404 VTAFHKLNSLLQEKIPVEWLERFNNW--VTNLTNK 1436
             +  HK++  L   I V  +  FN+W  V+    K
Sbjct: 67   TSLGHKIDMCLN-LIRVG-IF-FNDWDHVSKYIEK 98


>gnl|CDD|150830 pfam10216, ChpXY, CO2 hydration protein (ChpXY).  This small family
            of proteins includes paralogues ChpX and ChpY in
            Synechococcus sp. PCC7942 and other cyanobacteria,
            associated with distinct NAD(P)H dehydrogenase complexes.
            These proteins collectively enable light-dependent CO2
            hydration and CO2 uptake; loss of both blocks growth at
            low CO2 concentrations.
          Length = 353

 Score = 32.7 bits (75), Expect = 0.85
 Identities = 26/101 (25%), Positives = 43/101 (42%), Gaps = 12/101 (11%)

Query: 1427 NNWVTNLTNKGFPPDLADRIVRM--------QFLMVVPDL-IDISETCDT-SLLVVLDMW 1476
             N +    +K FP D     VR         QF  V+ D+ +D+S+  D   +  + D+ 
Sbjct: 119  GNPLLLGLHKLFP-DFLPEQVRQLAYYSALGQFWRVMSDIFLDLSDRYDEGEIKSIPDVV 177

Query: 1477 SAISVGLGVDRLLSVAHNVVVDD-HYENLALSAGLDWMYSA 1516
            + I  GL       + ++V +    YE L  SAGL ++   
Sbjct: 178  NHIRDGLVAAAGRPITYSVEIGGEVYEILPKSAGLTFLMDT 218


>gnl|CDD|130141 TIGR01069, mutS2, MutS2 family protein.  Function of MutS2 is
            unknown. It should not be considered a DNA mismatch
            repair protein. It is likely a DNA mismatch binding
            protein of unknown cellular function.
          Length = 771

 Score = 32.1 bits (73), Expect = 1.2
 Identities = 18/134 (13%), Positives = 49/134 (36%), Gaps = 4/134 (2%)

Query: 1292 SEDIMNHQLRRAIVATVLANEIINKGGSCFVVSLAKETGSSTEDVIRSAVIAYAGYELES 1351
                ++  +R   +A  L++ I+      +V+ L        + ++     + +G     
Sbjct: 162  VVKRLHKIIRSKELAKYLSDTIVTIRNGRYVLPLKSGFKGKIKGIVHD--TSSSGETFYI 219

Query: 1352 LWQEVDKLDNQISGELQNKIYEEIRLIFINLTRLLIKNGKFIGDIGNAVKRLVTAFHKLN 1411
              Q + KL+N+++ +L+N+   EI  I   L+  + +    +  +      L +   +  
Sbjct: 220  EPQAIVKLNNKLA-QLKNEEECEIEKILRTLSEKVQEYLLELKFLFKEFDFLDSLQARAR 278

Query: 1412 -SLLQEKIPVEWLE 1424
             +   +        
Sbjct: 279  YAKAVKGEFPMPSF 292


>gnl|CDD|180437 PRK06169, PRK06169, putative amidase; Provisional.
          Length = 466

 Score = 31.1 bits (71), Expect = 2.3
 Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 585 LVVLYQM-DLSP--ATIARFDLVDRRDALVEAFKYIFHER 621
           L+  Y+  +LSP  AT A  D +DRRD  V AF  +  E 
Sbjct: 12  LLAAYRRGELSPVEATQAVLDRIDRRDPAVNAFCLVDAEG 51


>gnl|CDD|179885 PRK04841, PRK04841, transcriptional regulator MalT; Provisional.
          Length = 903

 Score = 31.1 bits (71), Expect = 2.7
 Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 12/70 (17%)

Query: 141 IAQKQISLIQIHCLKITPEEAIEIKKQLIFIIEQLKLVSQDSREMLASLEKMQKSFCHLT 200
           IA+ QI L Q        +EA  I ++L      L+L+S  +R ++     +        
Sbjct: 697 IARAQILLGQF-------DEAEIILEELNENARSLRLMSDLNRNLI-----LLNQLYWQQ 744

Query: 201 GIKEYAVEAL 210
           G K  A   L
Sbjct: 745 GRKSEAQRVL 754


>gnl|CDD|130381 TIGR01314, gntK_FGGY, gluconate kinase, FGGY type.  Gluconate is
            derived from glucose in two steps. This model describes
            one form of gluconate kinase, belonging to the FGGY
            family of carbohydrate kinases. Gluconate kinase
            phosphoryates gluconate for entry into the
            Entner-Douderoff pathway.
          Length = 505

 Score = 30.3 bits (68), Expect = 4.0
 Identities = 13/26 (50%), Positives = 17/26 (65%)

Query: 1370 KIYEEIRLIFINLTRLLIKNGKFIGD 1395
            +IY EI  IFINL+R L+   + I D
Sbjct: 477  EIYREISPIFINLSRSLLAEYEQIAD 502


>gnl|CDD|149922 pfam09015, NgoMIV_restric, NgoMIV restriction enzyme.  Members of
           this family are prokaryotic DNA restriction enzymes,
           exhibiting an alpha/beta structure, with a central
           region comprising a mixed six-stranded beta-sheet with
           alpha-helices on each side. A long 'arm' protrudes out
           of the core of the domain between strands beta2 and
           beta3 and is mainly involved in the tetramerisation
           interface of the protein. These restriction enzymes
           recognize the double-stranded sequence GCCGGC and cleave
           after G-1.
          Length = 277

 Score = 29.8 bits (67), Expect = 5.5
 Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 2/41 (4%)

Query: 792 SDRAADYRTEVLGLVRAQKVKNAVIVPVGAKGGFYPKRLPS 832
           SDRA + RTE L L+R +K +   IV V A+    P R+ S
Sbjct: 183 SDRAQNTRTEALNLIRNRKGRLPHIVVVTAEP--LPSRIAS 221


>gnl|CDD|185433 PTZ00079, PTZ00079, NADP-specific glutamate dehydrogenase;
            Provisional.
          Length = 454

 Score = 29.7 bits (67), Expect = 5.6
 Identities = 16/43 (37%), Positives = 23/43 (53%)

Query: 1105 KVIGEGANLGLTQQARVVYSLNGGRINSDAIDNSGGVNCSDLE 1147
            K++ EGAN+  T +A  ++  NG         N+GGV  S LE
Sbjct: 347  KLVAEGANMPTTIEATHLFKKNGVIFCPGKAANAGGVAISGLE 389


>gnl|CDD|162790 TIGR02262, benz_CoA_lig, benzoate-CoA ligase family.  Characterized
           members of this protein family include benzoate-CoA
           ligase, 4-hydroxybenzoate-CoA ligase,
           2-aminobenzoate-CoA ligase, etc. Members are related to
           fatty acid and acetate CoA ligases.
          Length = 508

 Score = 29.4 bits (66), Expect = 6.9
 Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 9/61 (14%)

Query: 445 EEGLVRIH-FVIVRSGGEISHPSQESLEEGVRSIVACWE--------DKFYKSAGDGVPR 495
           E+GL++   F+++R G +I    +  L+E V+  +A ++        D   K+A   + R
Sbjct: 443 EDGLIKPKAFIVLRPGQDIDTALETELKEHVKDRLAPYKYPRWIVFVDDLPKTATGKIQR 502

Query: 496 F 496
           F
Sbjct: 503 F 503


>gnl|CDD|161811 TIGR00306, apgM, 2,3-bisphosphoglycerate-independent
           phosphoglycerate mutase, archaeal form.  This model
           describes a set of proteins in the Archaea (two each in
           Methanococcus jannaschii, Methanobacterium
           thermoautotrophicum, and Archaeoglobus fulgidus) and in
           Aquifex aeolicus (1 member).
          Length = 396

 Score = 29.4 bits (66), Expect = 8.2
 Identities = 25/87 (28%), Positives = 32/87 (36%), Gaps = 6/87 (6%)

Query: 406 FSSLIYIPREYFDSF-VREKIGNYLSEVCEGHVAFYSSILEEGLVRIHFVIV-RSGGEIS 463
            S L Y P E +      E  G  + E+  G VAF  ++     V   FVIV R  G IS
Sbjct: 58  LSILGYDPYEEYTGRGPIEAAGVGV-ELKPGDVAFRCNL---ATVDEDFVIVDRRAGRIS 113

Query: 464 HPSQESLEEGVRSIVACWEDKFYKSAG 490
                 L + +          FY   G
Sbjct: 114 REEASKLIDELNRTELDGFVLFYSGTG 140


>gnl|CDD|178454 PLN02863, PLN02863, UDP-glucoronosyl/UDP-glucosyl transferase
           family protein.
          Length = 477

 Score = 29.1 bits (65), Expect = 10.0
 Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 2/41 (4%)

Query: 59  DIFAGWDHSSACCIDIREVEGINPSG-ISISIITVIVDNIP 98
           D+F GW  + AC + IR     +PSG +++SI+  +   +P
Sbjct: 121 DMFLGWTQNLACQLGIRRFV-FSPSGAMALSIMYSLWREMP 160


  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
   0.322    0.138    0.397 

Gapped
Lambda     K      H
   0.267   0.0624    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 26,261,817
Number of extensions: 1813201
Number of successful extensions: 3496
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3494
Number of HSP's successfully gapped: 18
Length of query: 1576
Length of database: 5,994,473
Length adjustment: 106
Effective length of query: 1470
Effective length of database: 3,704,025
Effective search space: 5444916750
Effective search space used: 5444916750
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: 64 (28.7 bits)