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)