RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= 537021.9.peg.477_1 (235 letters) >gnl|CDD|31072 COG0728, MviN, Uncharacterized membrane protein, putative virulence factor [General function prediction only]. Length = 518 Score = 97.6 bits (243), Expect = 2e-21 Identities = 62/218 (28%), Positives = 106/218 (48%), Gaps = 1/218 (0%) Query: 3 ALLPKLSSAIQLENKQQSSELRNRAIEYVLFFGIPCTAILLMLPKEIIQTLYERGAFTAQ 62 LLP LS + + +L + + L +P +A LL+L + I+ L+ERGAFTA+ Sbjct: 291 VLLPSLSRHAANGDWPEFLKLLDWGLRLTLLLTLPASAGLLVLAEPIVSLLFERGAFTAE 350 Query: 63 DTILVSSYLSIYSTEIVGFLLSRVLLSEFYARNDVKTPAKFYILSIVMGFVIAIGLFPFI 122 D ++ + L+ YS ++ F L ++L FYAR D KTP K I+S+V+ ++ + L P + Sbjct: 351 DVLMTAEALAAYSLGLIPFALVKLLSRVFYAREDTKTPMKIAIISLVVNILLNLLLIPPL 410 Query: 123 GGYGIATAEVSWVWVNTICLAVALLKR-RQIDLPFQTIYRILSIFISSGLMGMFIVFFKP 181 G G+A A WVN + L L KR + ++ IL + ++S +M ++ Sbjct: 411 GHVGLALATSLAAWVNALLLYYLLRKRLVYLPGRGWGLFLILKLLLASAIMAAALLALLH 470 Query: 182 CLFNQLSAETAFSPFKNLAIILSGAVLVYLCSISLLLG 219 + + ++L ++ LLLG Sbjct: 471 LAQREWLLGGLLLIRLGVLLLLVLLGAGVYFAMLLLLG 508 >gnl|CDD|111867 pfam03023, MVIN, MviN-like protein. Deletion of the mviN virulence gene in Salmonella enterica serovar. Typhimurium greatly reduces virulence in a mouse model of typhoid-like disease. Open reading frames encoding homologues of MviN have since been identified in a variety of bacteria, including pathogens and non-pathogens and plant-symbionts. In the nitrogen-fixing symbiont Rhizobium tropici, mviN is required for motility. The MviM protein is predicted to be membrane-associated. Length = 452 Score = 97.4 bits (243), Expect = 3e-21 Identities = 55/180 (30%), Positives = 91/180 (50%) Query: 1 MAALLPKLSSAIQLENKQQSSELRNRAIEYVLFFGIPCTAILLMLPKEIIQTLYERGAFT 60 LLP+LS + + + +L ++AI L IP + LL+L I+ LYERGAF+ Sbjct: 255 STVLLPRLSRHAKDGDWDEFLDLLDQAIRLTLLLMIPASFGLLVLSDPIVSVLYERGAFS 314 Query: 61 AQDTILVSSYLSIYSTEIVGFLLSRVLLSEFYARNDVKTPAKFYILSIVMGFVIAIGLFP 120 +D + L+ Y+ ++ + L ++L FYAR D KTP K ++S V+ ++++ L P Sbjct: 315 PEDVTATAGVLAAYALGLIPYALVKLLSRVFYAREDTKTPFKISLISAVLNILLSLLLLP 374 Query: 121 FIGGYGIATAEVSWVWVNTICLAVALLKRRQIDLPFQTIYRILSIFISSGLMGMFIVFFK 180 +G G+A A W+N + L L KR + S+ + + LMG I+ Sbjct: 375 PLGVVGLALATSLSAWINLVFLYYILRKRLGGHSLRGWKTFLASLVVPTALMGGVILLLS 434 >gnl|CDD|30880 COG0534, NorM, Na+-driven multidrug efflux pump [Defense mechanisms]. Length = 455 Score = 39.4 bits (92), Expect = 8e-04 Identities = 39/191 (20%), Positives = 75/191 (39%), Gaps = 17/191 (8%) Query: 1 MAALLPKLSSAIQLENKQQSSELRNRAIEYVLFFGIPCTAILLMLPKEIIQTLYERGAFT 60 ++ AI +++++ + + + L G+ +LL + +++ L Sbjct: 73 GTGTTVLVAQAIGAGDRKKAKRVLGQGLLLALLLGLLLAILLLFFAEPLLRLLGAPAEVL 132 Query: 61 AQDTILVSSYLSIYSTEIVGFLLSRVLLSEFYARNDVKTPAKFYILS----IVMGFVIAI 116 L + YL I LLS VL D KTP +L IV+ +++ Sbjct: 133 E----LAAEYLRIILLGAPFALLSFVLSGILRGLGDTKTPMYILLLGNLLNIVLNYLLIF 188 Query: 117 GLFPFIGGYGIATAEVSWVWVNTICLAVALLKRRQIDLPF---------QTIYRILSIFI 167 GLF +G G A A V W+ + L + LL+++++ F + + IL + + Sbjct: 189 GLFGGLGVAGAALATVIARWIGALLLLIYLLRKKRLLSLFKKKLLKPDRKLLKEILRLGL 248 Query: 168 SSGLMGMFIVF 178 L + Sbjct: 249 PIFLESLSESL 259 >gnl|CDD|32425 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]. Length = 480 Score = 30.1 bits (67), Expect = 0.59 Identities = 32/211 (15%), Positives = 81/211 (38%), Gaps = 6/211 (2%) Query: 1 MAALLPKLSSAIQLENKQQSSELRNRAIEYVLFFGIPCTAILLMLPKEIIQTLYERGAFT 60 L P LS A +++ +L ++++ +L IP LL+L II L+ + Sbjct: 270 NRVLFPALSRAYAEGDRKALKKLLRQSLKLLLLISIPALLGLLLLAPPIITLLFGEKYAS 329 Query: 61 AQDTILVSSYLSIYSTEIVGFLLSRVLLSEFYARNDVKTPAKFYILSIVMGFVIAIGLFP 120 A + + + ++ + L + S A + ++S ++ ++ + L P Sbjct: 330 AAPILQLLALAGLFLS------LVSLTSSLLQALGKQRLLLLISLISALLNLILNLLLIP 383 Query: 121 FIGGYGIATAEVSWVWVNTICLAVALLKRRQIDLPFQTIYRILSIFISSGLMGMFIVFFK 180 G G A A S + + + + L+ + + + ++ ++ + + + Sbjct: 384 RFGLIGAAIATASVIALALLLFYILRLRLVRTKFSYFLLLKLAALALLLLAILGLLELLV 443 Query: 181 PCLFNQLSAETAFSPFKNLAIILSGAVLVYL 211 L L L ++++ +++ L Sbjct: 444 ALLLLLLVLLALGILLFLLLLLIALVLILLL 474 >gnl|CDD|147094 pfam04762, IKI3, IKI3 family. Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation. This region contains WD40 like repeats. Length = 918 Score = 26.9 bits (60), Expect = 5.6 Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 2/31 (6%) Query: 6 PKLSSAIQL--ENKQQSSELRNRAIEYVLFF 34 P L A+QL E +++ SE A++++ F Sbjct: 818 PDLEDALQLIAELREEDSEQAEEALKHLCFL 848 >gnl|CDD|32784 COG2964, COG2964, Uncharacterized protein conserved in bacteria [Function unknown]. Length = 220 Score = 26.4 bits (58), Expect = 6.3 Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%) Query: 47 KEIIQTLYERGAFTAQDTI-LVSSYLSIYSTEIVGFL 82 +EI++ LYE+G F +D I +V+ L I + +L Sbjct: 176 REIVKALYEKGIFNLKDAINIVADRLGISRHTVYRYL 212 >gnl|CDD|146650 pfam04121, Nup84_Nup100, Nuclear pore protein 84 / 107. Nup84p forms a complex with five proteins, of which Nup120p, Nup85p, Sec13p, and a Sec13p homologues. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis. Length = 685 Score = 26.5 bits (59), Expect = 6.6 Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 1/29 (3%) Query: 14 LENKQQSSELRNRAIEYVLFFGIPCTAIL 42 L N SE R + +E G+ IL Sbjct: 407 LSNITDPSE-RKKQLELAKQLGLDVANIL 434 >gnl|CDD|39147 KOG3944, KOG3944, KOG3944, Uncharacterized conserved protein [Function unknown]. Length = 291 Score = 26.4 bits (58), Expect = 6.9 Identities = 15/45 (33%), Positives = 18/45 (40%) Query: 167 ISSGLMGMFIVFFKPCLFNQLSAETAFSPFKNLAIILSGAVLVYL 211 IS L M F L L E +P KN IL + + YL Sbjct: 51 ISCWLSAMLHCFAGGILACLLLGEPIIAPLKNHTDILLASAVWYL 95 >gnl|CDD|31175 COG0833, LysP, Amino acid transporters [Amino acid transport and metabolism]. Length = 541 Score = 26.3 bits (58), Expect = 8.5 Identities = 28/114 (24%), Positives = 44/114 (38%), Gaps = 20/114 (17%) Query: 103 FYILSIVM-----------GFVIAIGLFPFIGGYG-----IATAEVSWVWVNTICLAVAL 146 F IL I++ GF F GG+ A S+ + LA Sbjct: 200 FIILGIIIICGGGPTHGYIGFNYWHDPGAFAGGFKGFCSVFVIAAFSFSGTELVGLAAGE 259 Query: 147 LKRRQIDLP---FQTIYRILSIFI-SSGLMGMFIVFFKPCLFNQLSAETAFSPF 196 + + +P Q +RIL +I S ++G+ + + P L S+ A SPF Sbjct: 260 SENPRKSIPKAIKQVFWRILLFYILSIFVIGLLVPYNDPRLLGNSSSGVAASPF 313 >gnl|CDD|30589 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]. Length = 329 Score = 25.9 bits (57), Expect = 8.9 Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 1/28 (3%) Query: 137 VNTICLAVALLKRRQIDLP-FQTIYRIL 163 V T L K+ I++P + +YR+L Sbjct: 281 VRTAKAVYELAKKLGIEMPITEAVYRVL 308 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.329 0.142 0.411 Gapped Lambda K H 0.267 0.0733 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 2,730,974 Number of extensions: 148280 Number of successful extensions: 675 Number of sequences better than 10.0: 1 Number of HSP's gapped: 664 Number of HSP's successfully gapped: 93 Length of query: 235 Length of database: 6,263,737 Length adjustment: 91 Effective length of query: 144 Effective length of database: 4,297,318 Effective search space: 618813792 Effective search space used: 618813792 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 (21.8 bits) S2: 56 (25.3 bits)