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)