RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780377|ref|YP_003064790.1| flagellar basal body P-ring biosynthesis protein FlgA [Candidatus Liberibacter asiaticus str. psy62] (152 letters) >gnl|CDD|180347 PRK06005, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 160 Score = 122 bits (309), Expect = 3e-29 Identities = 55/126 (43%), Positives = 81/126 (64%), Gaps = 1/126 (0%) Query: 28 AVVPSVVINAGEVLNESRLKEMQ-VTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSV 86 VVPS I GE +++S L E+Q VTN Y SI VVG V +R LLP IP+S Sbjct: 35 FVVPSTTIYPGETISDSMLLEVQFVTNPPAAAQYVLSIDQVVGKVAKRTLLPGRPIPVSA 94 Query: 87 LHRPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVVDTGT 146 L P +++RG+ V+++ + G +TI+ AG L + GD+I V+N+D+GV+VSG+V+ GT Sbjct: 95 LREPSLVTRGSPVKLVFSAGGLTITAAGTPLQSGAAGDLIRVRNVDSGVIVSGTVLADGT 154 Query: 147 VRVVVK 152 ++V K Sbjct: 155 IQVGAK 160 >gnl|CDD|163171 TIGR03170, flgA_cterm, flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666. Length = 122 Score = 102 bits (257), Expect = 3e-23 Identities = 39/122 (31%), Positives = 65/122 (53%) Query: 28 AVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVL 87 VV + GEV++ LK + + + G +VVG V +R L + ++L Sbjct: 1 VVVAKRPLKRGEVISPEDLKLERGDLARLPGGVLTDPDEVVGKVAKRPLRAGQPLTANML 60 Query: 88 HRPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVVDTGTV 147 P+++ RG V +I G ++++T G AL D ++GD I V+N+ +G ++SG V GTV Sbjct: 61 RPPWLVKRGDTVTVIARGGGLSVTTEGKALEDGAVGDQIRVRNLSSGKIISGIVTGPGTV 120 Query: 148 RV 149 V Sbjct: 121 EV 122 >gnl|CDD|180794 PRK07018, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 235 Score = 83.8 bits (208), Expect = 2e-17 Identities = 38/127 (29%), Positives = 63/127 (49%) Query: 23 SVIGHAVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVI 82 V G VV + + GE L+ S + + + +VG V++R + P I Sbjct: 107 QVTGPYVVAARPLARGEKLSASDVTLREGDLDTLPPGVFTDPDQLVGAVSKRRIAPGQPI 166 Query: 83 PLSVLHRPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVV 142 L++L + +V+ +G V II ++ T G AL+D ++G I V+N+ +G +VSG V Sbjct: 167 RLNMLRQAWVVCKGQTVSIIARGDGFSVKTEGEALNDGAVGQQIRVRNMASGQVVSGIVT 226 Query: 143 DTGTVRV 149 G V V Sbjct: 227 GDGEVEV 233 >gnl|CDD|180704 PRK06804, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 261 Score = 66.1 bits (161), Expect = 3e-12 Identities = 31/122 (25%), Positives = 59/122 (48%) Query: 29 VVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVLH 88 V + G + ++ + S ++G Y + +GL +R + + S L Sbjct: 139 WVAKQTLERGRKVQADDIELKKKNISGVQGGYITDPDEAIGLTIKRRIRQLQAVIPSQLE 198 Query: 89 RPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVVDTGTVR 148 +P ++ RG V +I Q + T GIA + G++I VKN+ +G +V+ +V +G VR Sbjct: 199 QPVLVERGQHVLMIAAQDGIEAQTLGIAQKNGRKGELIKVKNLSSGRVVTATVDGSGRVR 258 Query: 149 VV 150 ++ Sbjct: 259 ML 260 >gnl|CDD|183744 PRK12786, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 338 Score = 60.4 bits (147), Expect = 2e-10 Identities = 35/127 (27%), Positives = 62/127 (48%), Gaps = 4/127 (3%) Query: 27 HAVVPSVV----INAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVI 82 + V + V + GEV+ S + + + + G+ S +D+VG+ RR L + Sbjct: 189 YETVEAPVLARAVGRGEVIKSSDVVWERRPKARVSGDDIASREDLVGMQARRALRAGQPL 248 Query: 83 PLSVLHRPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVV 142 + L +P ++ RG V +I + ++ G AL D + GDV+ V N+ + V+G+V Sbjct: 249 RGADLAKPDLVQRGQLVTLIYQTPGIYLTARGKALEDGAEGDVVRVLNLQSKRTVTGTVT 308 Query: 143 DTGTVRV 149 G V V Sbjct: 309 GRGQVSV 315 >gnl|CDD|183626 PRK12618, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 141 Score = 53.5 bits (129), Expect = 2e-08 Identities = 37/143 (25%), Positives = 54/143 (37%), Gaps = 8/143 (5%) Query: 7 LLFFSLYVLSLDSLFASVIGHAVVPSVVINAGEVLNESRLKEMQVTNSNIRGNYAHSIKD 66 L+ L +L A VV + I A V+ L + + G Sbjct: 4 LVLLLLLLLLAQPAAAET----VVAARTIRALTVIGAEDL---ALKPGDTPGALT-DPAQ 55 Query: 67 VVGLVTRRVLLPDHVIPLSVLHRPYVISRGAKVRIILTQGNMTISTAGIALSDASIGDVI 126 +G R L I + L P ++ R V + G + I T G ALS +GD I Sbjct: 56 AIGQEARVTLYAGRPIRAADLGPPAIVDRNQLVPLAYRLGGLEIRTEGRALSRGGVGDEI 115 Query: 127 AVKNIDTGVMVSGSVVDTGTVRV 149 V N+ + VSG + G+V V Sbjct: 116 RVMNLSSRTTVSGRIAADGSVIV 138 >gnl|CDD|183625 PRK12617, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 214 Score = 41.8 bits (98), Expect = 6e-05 Identities = 31/115 (26%), Positives = 55/115 (47%) Query: 35 INAGEVLNESRLKEMQVTNSNIRGNYAHSIKDVVGLVTRRVLLPDHVIPLSVLHRPYVIS 94 I AGE ++ + + + + I G VG RR+L ++ + L ++ Sbjct: 98 ITAGETISLADISIEKRDAARIVGAVLADPVAAVGKTARRILPAGSLLSANDLVSQRLVR 157 Query: 95 RGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVVDTGTVRV 149 RG V ++ G + + +G ALSDA + ++V+N + +V G V +GTV V Sbjct: 158 RGDTVPLVSRNGGLEVRMSGRALSDAGENERVSVENSSSRRVVQGIVEASGTVVV 212 >gnl|CDD|181454 PRK08515, flgA, flagellar basal body P-ring biosynthesis protein FlgA; Reviewed. Length = 222 Score = 33.4 bits (77), Expect = 0.027 Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 1/56 (1%) Query: 92 VISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNIDTGVMVSGSVVDTGTV 147 ++ + + +L +G ++I + AL D ++GD+I KN ++ V+ Sbjct: 165 LVRKNDIINGVLKEGGVSIEISLKALQDGNLGDIIQAKNKSNKIL-KAKVLSKNKA 219 >gnl|CDD|172774 PRK14286, PRK14286, chaperone protein DnaJ; Provisional. Length = 372 Score = 27.3 bits (60), Expect = 1.6 Identities = 15/42 (35%), Positives = 21/42 (50%) Query: 91 YVISRGAKVRIILTQGNMTISTAGIALSDASIGDVIAVKNID 132 YV++ K + QGN I I+L+ A +G I V ID Sbjct: 254 YVVTHIKKHELFERQGNDLILVRKISLAQAILGAEIEVPTID 295 >gnl|CDD|129091 smart00858, SAF, This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins. Length = 64 Score = 26.8 bits (60), Expect = 2.4 Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 1/60 (1%) Query: 29 VVPSVVINAGEVLNESRLKEMQVTNSNIRGN-YAHSIKDVVGLVTRRVLLPDHVIPLSVL 87 VV + + AGEV+ ++ V ++ G V+G V RR + I S L Sbjct: 4 VVAARDLPAGEVITAEDVRLGHVALRDLPGGGGLTPYGQVIGKVARRDIAAGEPITASDL 63 >gnl|CDD|177380 PHA02545, 45, sliding clamp; Provisional. Length = 223 Score = 26.5 bits (59), Expect = 2.7 Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 2/28 (7%) Query: 101 IILTQGN--MTISTAGIALSDASIGDVI 126 I+L GN MT S G+ ++A+I D Sbjct: 21 IVLKPGNFIMTKSVNGVIYAEATIEDEF 48 >gnl|CDD|185212 PRK15312, PRK15312, antimicrobial resistance protein Mig-14; Provisional. Length = 298 Score = 26.3 bits (58), Expect = 3.0 Identities = 9/21 (42%), Positives = 12/21 (57%) Query: 74 RVLLPDHVIPLSVLHRPYVIS 94 R LPD LS LH+P + + Sbjct: 97 RCFLPDRTNRLSALHQPQIRN 117 >gnl|CDD|181699 PRK09206, PRK09206, pyruvate kinase; Provisional. Length = 470 Score = 26.6 bits (59), Expect = 3.0 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 7/53 (13%) Query: 101 IILTQGNMTISTAGIALSDA--SIGDVIA-----VKNIDTGVMVSGSVVDTGT 146 ++L++G + IA +D +G +A + D VMVSG++V +GT Sbjct: 409 LVLSKGVVPQLVKEIASTDDFYRLGKELALQSGLAQKGDVVVMVSGALVPSGT 461 >gnl|CDD|182245 PRK10110, PRK10110, bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional. Length = 530 Score = 26.6 bits (59), Expect = 3.0 Identities = 9/34 (26%), Positives = 19/34 (55%) Query: 103 LTQGNMTISTAGIALSDASIGDVIAVKNIDTGVM 136 LT + +T L +I ++ +++IDTG++ Sbjct: 116 LTNKGILPTTDAAVLKANNIQSILGIQSIDTGIL 149 >gnl|CDD|161797 TIGR00275, TIGR00275, flavoprotein, HI0933 family. The model when searched with a partial length search brings in proteins with a dinucleotide-binding motif (Rossman fold) over the initial 40 residues of the model, including oxidoreductases and dehydrogenases. Partially characterized members include an FAD-binding protein from Bacillus cereus and flavoprotein HI0933 from Haemophilus influenzae. Length = 400 Score = 25.6 bits (57), Expect = 5.0 Identities = 12/30 (40%), Positives = 16/30 (53%) Query: 21 FASVIGHAVVPSVVINAGEVLNESRLKEMQ 50 A +GH +VP V L+ES LKE+ Sbjct: 173 IAESLGHTIVPPVPALVPLTLDESFLKELS 202 >gnl|CDD|130990 TIGR01935, NOT-MenG, RraA famliy. This model was initially classified as a "hypothetical equivalog" expressing the tentative hypothesis that all members might have the same function as the E. coli enzyme. Considering the second clade of enterobacterial sequences within this family, that appears to be less tenable. The function of these sequences outside of the narrow RraA equivalog model (TIGR02998) remains obscure. All of these were initially annotated as MenG, AKA S-adenosylmethionine: 2-demethylmenaquinone methyltransferase (EC 2.1.-.-). See the references characterizing this as a case of transitive annotation error in the case of the E. coli protein. Length = 150 Score = 25.4 bits (56), Expect = 6.9 Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 6/54 (11%) Query: 97 AKVRIILTQ---GNMTISTAGIALSDASIGDVIAVKNIDT---GVMVSGSVVDT 144 + VR +L Q G + + G +L A +GD +AV + GV+V+G V D Sbjct: 42 SLVREVLEQPGAGRVLVVDGGGSLRCALLGDNLAVLAEENGWEGVIVNGCVRDV 95 >gnl|CDD|185083 PRK15129, PRK15129, L-Ala-D/L-Glu epimerase; Provisional. Length = 321 Score = 25.1 bits (55), Expect = 8.3 Identities = 7/12 (58%), Positives = 11/12 (91%) Query: 87 LHRPYVISRGAK 98 LH P+VI+RG++ Sbjct: 13 LHTPFVIARGSR 24 >gnl|CDD|183175 PRK11522, PRK11522, putrescine--2-oxoglutarate aminotransferase; Provisional. Length = 459 Score = 24.7 bits (54), Expect = 9.2 Identities = 10/36 (27%), Positives = 18/36 (50%) Query: 114 GIALSDASIGDVIAVKNIDTGVMVSGSVVDTGTVRV 149 I D IG A + V+V+G++ + T+R+ Sbjct: 392 AIEFVDNEIGYNFASEMFRQRVLVAGTLNNAKTIRI 427 >gnl|CDD|183553 PRK12487, PRK12487, ribonuclease activity regulator protein RraA; Reviewed. Length = 163 Score = 24.9 bits (55), Expect = 9.3 Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 6/57 (10%) Query: 98 KVRIILTQ---GNMTISTAGIALSDASIGDVIA---VKNIDTGVMVSGSVVDTGTVR 148 KV+ +L Q G + + G + A +GD IA + N G++++G V D G + Sbjct: 47 KVKEVLAQDGKGKVLVVDGGGSCRRALLGDQIAQSALDNGWEGIVINGCVRDVGALS 103 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 0.323 0.138 0.379 Gapped Lambda K H 0.267 0.0738 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,382,921 Number of extensions: 142874 Number of successful extensions: 310 Number of sequences better than 10.0: 1 Number of HSP's gapped: 309 Number of HSP's successfully gapped: 30 Length of query: 152 Length of database: 5,994,473 Length adjustment: 85 Effective length of query: 67 Effective length of database: 4,157,793 Effective search space: 278572131 Effective search space used: 278572131 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 53 (24.2 bits)