RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781072|ref|YP_003065485.1| hypothetical protein CLIBASIA_04870 [Candidatus Liberibacter asiaticus str. psy62] (190 letters) >gnl|CDD|184382 PRK13902, alaS, alanyl-tRNA synthetase; Provisional. Length = 900 Score = 33.3 bits (77), Expect = 0.037 Identities = 21/97 (21%), Positives = 38/97 (39%), Gaps = 4/97 (4%) Query: 48 AQKAHKKRDKVYGAYDKVSSHKKSPKELSKAFYIDFRTELKYFKALTKYYKSVVAELREF 107 + + D + A + + P++L K F E K K + + +AEL Sbjct: 735 VEYIQELEDLLKEAAEILGV---PPEQLPKTV-ERFFEEWKEQKKEIEKLRKELAELLAS 790 Query: 108 GLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEEF 144 L A E+ + V+ + +E +K EL +E Sbjct: 791 ELLSKAEEVGGVKVVVEEVDADEDELRKIANELAKEG 827 Score = 27.1 bits (61), Expect = 2.6 Identities = 12/34 (35%), Positives = 19/34 (55%) Query: 114 IEIEEITKAVDTLTRAYNEYKKEIRELIEEFIEL 147 + E++ K V+ + E KKEI +L +E EL Sbjct: 754 VPPEQLPKTVERFFEEWKEQKKEIEKLRKELAEL 787 >gnl|CDD|150639 pfam09989, DUF2229, CoA enzyme activase uncharacterized domain (DUF2229). Members of this family include various bacterial hypothetical proteins, as well as CoA enzyme activases. The exact function of this domain has not, as yet, been defined. Length = 218 Score = 31.0 bits (71), Expect = 0.17 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%) Query: 89 YFKALTKYYKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEEFIEL 147 K K + ++ G+ K EEI KAV+ +KK++R+ EE + Sbjct: 121 NLKDKEALAKRLYELGKKLGISK-----EEIKKAVEKALEEQEAFKKDLRKKGEEALAY 174 >gnl|CDD|163395 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of alanyl-tRNA synthetases is limited to the archaea, and is a subset of those sequences identified by the model pfam07973 covering the second additional domain (SAD) of alanyl and threonyl tRNA synthetases. Length = 902 Score = 30.0 bits (68), Expect = 0.41 Identities = 14/61 (22%), Positives = 27/61 (44%) Query: 83 FRTELKYFKALTKYYKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIE 142 F E K + + K +AEL+ + L A I + V+ + +E ++ +L E Sbjct: 770 FFEEWKEQRKEIERLKKKLAELKIYELISEAERIGGVEVIVELVDADMDELQEIAEKLAE 829 Query: 143 E 143 + Sbjct: 830 K 830 >gnl|CDD|183010 PRK11170, nagA, N-acetylglucosamine-6-phosphate deacetylase; Provisional. Length = 382 Score = 29.6 bits (67), Expect = 0.52 Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 10/47 (21%) Query: 137 IRELIEEFIELGFDQCDECDLCSEKADVIQKKRIAFEMVEREFAEKL 183 IR+ E ++ LC E ADVI K +A EMV+ E KL Sbjct: 148 IRKPDAEMVDF---------LC-ENADVITKVTLAPEMVDAEVIRKL 184 >gnl|CDD|177761 PLN00162, PLN00162, transport protein sec23; Provisional. Length = 761 Score = 28.8 bits (65), Expect = 1.0 Identities = 25/119 (21%), Positives = 43/119 (36%), Gaps = 40/119 (33%) Query: 62 YDKVSSHKKSPKELSKAFYIDFRTELKYFKALTKYYKSVVAELREFGLGKSAIEIEEITK 121 ++ +S + +P+ + F++ F T Y+ + R Sbjct: 461 FEVANSGQSNPQPPGQQFFLQFLT----------RYQHSNGQTR---------------L 495 Query: 122 AVDTLTRAYNEYKKEIRELIEEFIELGFDQCDECDLCSEKADVIQKKRIAFEMV-EREF 179 V T+TR + E EE + GFDQ E A V+ + + +M E EF Sbjct: 496 RVTTVTRRWVEGSS-----SEELVA-GFDQ--------EAAAVVMARLASHKMETEEEF 540 >gnl|CDD|169974 PRK09566, nirA, ferredoxin-nitrite reductase; Reviewed. Length = 513 Score = 28.4 bits (64), Expect = 1.3 Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 9/48 (18%) Query: 110 GKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEEFIELGFDQCDECDL 157 GK +IE+ D L +++ +E+F ++G++ DE DL Sbjct: 9 GKKLNKIEKNKAEKDGL---------AVKDELEKFAQIGWEAMDETDL 47 >gnl|CDD|131231 TIGR02176, pyruv_ox_red, pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric. This model represents a single chain form of pyruvate:ferredoxin (or flavodoxin) oxidoreductase. This enzyme may transfer electrons to nitrogenase in nitrogen-fixing species. Portions of this protein are homologous to gamma subunit of the four subunit pyruvate:ferredoxin (flavodoxin) oxidoreductase. Length = 1165 Score = 28.2 bits (63), Expect = 1.4 Identities = 16/47 (34%), Positives = 22/47 (46%) Query: 13 SKIPDAKFGSFLQIRSKESVINKEFVTKVEELYEKAQKAHKKRDKVY 59 SK PD+ FL + + + K F E L+ KA K+R K Y Sbjct: 1114 SKEPDSSVAEFLNGEVRFASLKKSFPDDAERLFNKAAHEAKRRFKEY 1160 >gnl|CDD|184409 PRK13942, PRK13942, protein-L-isoaspartate O-methyltransferase; Provisional. Length = 212 Score = 28.1 bits (63), Expect = 1.4 Identities = 15/55 (27%), Positives = 23/55 (41%) Query: 35 KEFVTKVEELYEKAQKAHKKRDKVYGAYDKVSSHKKSPKELSKAFYIDFRTELKY 89 K + E ++ + K KV A KV H P+ L + Y+D E+ Y Sbjct: 1 MPLEEKRRVIEELIREGYIKSKKVIDALLKVPRHLFVPEYLEEYAYVDTPLEIGY 55 >gnl|CDD|179966 PRK05222, PRK05222, 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional. Length = 758 Score = 28.2 bits (64), Expect = 1.5 Identities = 22/57 (38%), Positives = 27/57 (47%), Gaps = 15/57 (26%) Query: 132 EYKKEIRELIEEFIELGFDQCDECDLCSEKADVIQKKRIAFE---MVEREFAEKLEG 185 EY+ IRE I I L Q +E L DV+ FE MVE F E+L+G Sbjct: 458 EYEAFIREEIARAIRL---Q-EELGL-----DVLVHGE--FERNDMVEY-FGEQLDG 502 >gnl|CDD|180186 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated. Length = 619 Score = 27.1 bits (61), Expect = 3.2 Identities = 15/79 (18%), Positives = 32/79 (40%), Gaps = 5/79 (6%) Query: 29 KESVINKEFVTKVEELYEKAQKAHKKRDKVYGAYDKVSSHKKSPKELSKAFYIDFRTELK 88 E V+ K + + Y+K +KA +K+ + A K + + ++L + R K Sbjct: 217 PEKVLEK--FKALAKQYKKLRKAQEKKVEGRLAQHKKYAKLR--EKLKEELK-SLRLTSK 271 Query: 89 YFKALTKYYKSVVAELREF 107 L + + + +R Sbjct: 272 QIDELVEQLRDINKRVRGQ 290 >gnl|CDD|178135 PLN02520, PLN02520, bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase. Length = 529 Score = 27.0 bits (60), Expect = 3.3 Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 6/71 (8%) Query: 13 SKIPDAKFGSFLQIRS----KESVINKEFVTKVEELYEKAQKAHKKRDKVYGAYDKVSSH 68 S+I KFG +L + K S + + + +LY Q KVYG K H Sbjct: 207 SRILCPKFGGYLTFGTLEAGKVSAPGQPTIKDLLDLYNFRQI--GPDTKVYGIIGKPVGH 264 Query: 69 KKSPKELSKAF 79 KSP ++AF Sbjct: 265 SKSPILHNEAF 275 >gnl|CDD|181932 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed. Length = 711 Score = 26.4 bits (59), Expect = 4.6 Identities = 11/17 (64%), Positives = 13/17 (76%) Query: 40 KVEELYEKAQKAHKKRD 56 KV EL EKA+ +KKRD Sbjct: 456 KVLELLEKARAIYKKRD 472 >gnl|CDD|179853 PRK04456, PRK04456, acetyl-CoA decarbonylase/synthase complex subunit beta; Reviewed. Length = 463 Score = 26.2 bits (58), Expect = 5.8 Identities = 11/17 (64%), Positives = 14/17 (82%) Query: 40 KVEELYEKAQKAHKKRD 56 KVEE EKA++ +KKRD Sbjct: 158 KVEEELEKAREIYKKRD 174 >gnl|CDD|161733 TIGR00153, TIGR00153, conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport. Length = 216 Score = 26.2 bits (58), Expect = 5.9 Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 1/67 (1%) Query: 115 EIEEITKAVDTLTRAYNEYKKEIRELIEEFIELGFDQCDECDLCSEKADVIQK-KRIAFE 173 + EE+ K + + +E K+EIR +E+ L D+ D +L +++ + A Sbjct: 44 KDEELRKEIIEIEHEADEIKREIRLNLEKGAFLPNDRRDLLELAELLDEILDSLEHAAML 103 Query: 174 MVEREFA 180 R+F Sbjct: 104 YELRKFE 110 >gnl|CDD|184102 PRK13511, PRK13511, 6-phospho-beta-galactosidase; Provisional. Length = 469 Score = 26.1 bits (58), Expect = 6.1 Identities = 9/22 (40%), Positives = 14/22 (63%) Query: 79 FYIDFRTELKYFKALTKYYKSV 100 FY+DF T+ +Y K +YK + Sbjct: 441 FYVDFETQERYPKKSAYWYKKL 462 >gnl|CDD|177823 PLN02165, PLN02165, adenylate isopentenyltransferase. Length = 334 Score = 25.9 bits (57), Expect = 7.2 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 8/47 (17%) Query: 90 FKALTKYYKSVVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKE 136 F+ L ++Y V + G+ K AI + E R + +Y E Sbjct: 205 FEELAEFYDPVKSGSEPLGIRK-AIGVPE-------FDRYFKKYPPE 243 >gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional. Length = 248 Score = 25.5 bits (57), Expect = 7.5 Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 1/35 (2%) Query: 116 IEEITKAVDTLTRAYNEYKKEIRELIEEFIELGFD 150 ++ IT+AV +T E KK+ RE +EE +E +D Sbjct: 194 VDNITRAVPNMTEYARELKKKDREELEEIVE-NYD 227 >gnl|CDD|162432 TIGR01578, MiaB-like-B, MiaB-like tRNA modifying enzyme, archaeal-type. This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model. Length = 420 Score = 25.5 bits (56), Expect = 8.0 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 5/73 (6%) Query: 63 DKVSSHKKSPKELSKAFY---IDFRTELKYFKALTKYYKSVVAELREFGLGKS--AIEIE 117 +K++ K SP+ + A I K K LTK Y+ V+ E+R+ +G + + Sbjct: 315 EKINITKFSPRPGTPAAKMKRIPTNIVKKRSKRLTKLYEQVLLEMRDNLIGTRVHVLVTK 374 Query: 118 EITKAVDTLTRAY 130 E AY Sbjct: 375 EGKGDSLDDEDAY 387 >gnl|CDD|177779 PLN00185, PLN00185, 60S ribosomal protein L4-1; Provisional. Length = 405 Score = 25.5 bits (56), Expect = 8.3 Identities = 9/22 (40%), Positives = 14/22 (63%) Query: 49 QKAHKKRDKVYGAYDKVSSHKK 70 + A +K D +YG ++K S KK Sbjct: 259 KSAFEKLDSIYGTFEKPSEKKK 280 >gnl|CDD|180691 PRK06778, PRK06778, hypothetical protein; Validated. Length = 289 Score = 25.7 bits (56), Expect = 8.4 Identities = 7/21 (33%), Positives = 14/21 (66%) Query: 111 KSAIEIEEITKAVDTLTRAYN 131 KSA E+ E+ +++T+ R + Sbjct: 109 KSATELGELATSINTIARDAH 129 >gnl|CDD|180249 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated. Length = 646 Score = 25.7 bits (57), Expect = 8.9 Identities = 25/104 (24%), Positives = 39/104 (37%), Gaps = 18/104 (17%) Query: 40 KVEELYEKAQKAHKKRDKVYGAYDKVSSHKKSPKELSKAFYIDFRTELKYFKALTKYYKS 99 K E E+ +K K+ A DK R+ L L + K Sbjct: 37 KEELSNERLRKLRSLLTKLSEALDK------------------LRSYLPKLNPLREEKKK 78 Query: 100 VVAELREFGLGKSAIEIEEITKAVDTLTRAYNEYKKEIRELIEE 143 V + E + E+E+I K + L +E + EI+EL +E Sbjct: 79 VSVKSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQE 122 >gnl|CDD|183851 PRK13028, PRK13028, tryptophan synthase subunit beta; Provisional. Length = 402 Score = 25.2 bits (56), Expect = 9.8 Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 6/34 (17%) Query: 117 EEITKAVDTLTRAYNEYKK------EIRELIEEF 144 E+ A+D L AY E KK E+R L++ + Sbjct: 25 PELKPALDELEAAYEEIKKDPDFIAELRYLLKHY 58 >gnl|CDD|130300 TIGR01233, lacG, 6-phospho-beta-galactosidase. This enzyme is part of the tagatose-6-phosphate pathway of galactose-6-phosphate degradation. Length = 467 Score = 25.4 bits (55), Expect = 9.9 Identities = 9/22 (40%), Positives = 14/22 (63%) Query: 79 FYIDFRTELKYFKALTKYYKSV 100 FY+DF T+ +Y K +YK + Sbjct: 439 FYVDFDTQERYPKKSAHWYKKL 460 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 0.315 0.132 0.356 Gapped Lambda K H 0.267 0.0778 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,963,320 Number of extensions: 184217 Number of successful extensions: 845 Number of sequences better than 10.0: 1 Number of HSP's gapped: 823 Number of HSP's successfully gapped: 114 Length of query: 190 Length of database: 5,994,473 Length adjustment: 88 Effective length of query: 102 Effective length of database: 4,092,969 Effective search space: 417482838 Effective search space used: 417482838 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.5 bits) S2: 54 (24.5 bits)