RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764488|ref|YP_003065099.2| flagellar motor protein MotA
[Candidatus Liberibacter asiaticus str. psy62]
(290 letters)
>gnl|CDD|31482 COG1291, MotA, Flagellar motor component [Cell motility and
secretion].
Length = 266
Score = 229 bits (585), Expect = 8e-61
Identities = 102/282 (36%), Positives = 150/282 (53%), Gaps = 21/282 (7%)
Query: 1 MSTIIGLFITILCIIGGFYAMGGNPYILIQPFEIVIVAGAGLGGFVMANPLKVIKDSGVS 60
M TIIGL + ++GG+ GG+ LIQP ++I+ G G+G F++ NP KV+K + +
Sbjct: 3 MLTIIGLVLAFGSVLGGYILGGGSLGALIQPSSLLIIVGGGIGAFMVGNPGKVVKATPKA 62
Query: 61 LLEIFGYKALGQDTYCDVLKLLYILMYNLKKGSRNETENHIDDPYNSTIFTSIPTVLENN 120
L E F + ++ Y D++ LLY L +K E D+
Sbjct: 63 LKEAF--RKPKKEDYVDLIALLYELAEKARKEGLLALEALADE----------------- 103
Query: 121 ELTTFICDYMRMIIVGNARSYEIENLMDEEIDIILYEKLKPYHAISHMGESLPAIGIVGA 180
FI D +R+I+ GN EIE LM+EEI+ + KP HA + G+ PA GIVGA
Sbjct: 104 IEDPFIKDGLRLIVDGND-PEEIEALMEEEIETMEERHEKPAHAFTTAGDYAPAFGIVGA 162
Query: 181 ILGIIKAMGNLSQSPKILGTAIGVSLTGTLLGIILSYSLCNPLTSQIKSTRLKQHRLYII 240
++G+I A+GNL P LG I +L GTL GI L+Y L PL +++K ++ +L I
Sbjct: 163 VMGLIHALGNLDD-PAELGALIAAALVGTLYGIFLAYGLFGPLANKLKQKSDEEVKLKEI 221
Query: 241 VKKALIAYMNGAIPQVAIEYGRKVLPLSERPSIEIVAQEVLQ 282
+ + L+A NG P++ E RK L ERPS + +EV
Sbjct: 222 IIEGLLAIQNGENPRILEEKLRKFLSPKERPSFAELEEEVRG 263
>gnl|CDD|144995 pfam01618, MotA_ExbB, MotA/TolQ/ExbB proton channel family. This
family groups together integral membrane proteins that
appear to be involved translocation of proteins across a
membrane. These proteins are probably proton channels.
MotA is an essential component of the flageller motor
that uses a proton gradient to generate rotational
motion in the flageller. ExbB is part of the
TonB-dependent transduction complex. The TonB complex
uses the proton gradient across the inner bacterial
membrane to transport large molecules across the outer
bacterial membrane.
Length = 139
Score = 36.8 bits (86), Expect = 0.006
Identities = 21/91 (23%), Positives = 38/91 (41%), Gaps = 13/91 (14%)
Query: 137 NARSYEIENLMD-EEIDIILYEKLKPYHA--------ISHMGESLPAIGIVGAILGIIKA 187
+ IE E + + L E L ++ +G P +G++G + GII A
Sbjct: 21 LGLAPLIERGAFKEFLRLALEEALDAELRKLERGLTILATIGSVAPFLGLLGTVWGIIHA 80
Query: 188 MGNLSQS----PKILGTAIGVSLTGTLLGII 214
++ Q+ P ++ I +L T LG+
Sbjct: 81 FIHIGQTGQADPAVVAPGISEALVATALGLF 111
>gnl|CDD|31153 COG0811, TolQ, Biopolymer transport proteins [Intracellular
trafficking and secretion].
Length = 216
Score = 30.0 bits (67), Expect = 0.79
Identities = 14/68 (20%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 173 PAIGIVGAILGIIKAMGNLSQ----SPKILGTAIGVSLTGTLLGI---ILSYSLCNPLTS 225
P +G++G + GI+ A + ++ I +L T +G+ I + N L
Sbjct: 130 PFLGLLGTVWGIMPAFIGIGAGGGADLAVVAPGISEALIATAIGLFVAIPAVVAYNVLRR 189
Query: 226 QIKSTRLK 233
+++ K
Sbjct: 190 KVEELLAK 197
>gnl|CDD|38439 KOG3229, KOG3229, KOG3229, Vacuolar sorting protein VPS24
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 227
Score = 30.0 bits (67), Expect = 0.87
Identities = 16/64 (25%), Positives = 32/64 (50%), Gaps = 4/64 (6%)
Query: 155 LYEKLKPYHAIS-HMGESLPAIGIVGAI---LGIIKAMGNLSQSPKILGTAIGVSLTGTL 210
LYE +++S + E L + + G++ ++KA+ +L + P++ T +S
Sbjct: 77 LYESKAQLNSVSMQLKEQLATLRVAGSLQKSTEVMKAVNSLVKLPELAATMRELSKEMMK 136
Query: 211 LGII 214
GII
Sbjct: 137 AGII 140
>gnl|CDD|145250 pfam01970, TctA, Tripartite tricarboxylate transporter TctA family.
This family, formerly known as DUF112, is a family of
bacterial and archaeal tripartite tricarboxylate
transporters of the extracytoplasmic solute binding
receptor-dependent transporter group of families,
distinct from the ABC and TRAP-T families. TctA is part
of the tripartite TctABC system which, as characterized
in S. typhimurium, is a secondary carrier that depends
for activity on the extracytoplasmic
tricarboxylate-binding receptor TctC as well as two
integral membrane proteins, TctA and TctB. complete
three-component systems are found only in bacteria. TctA
is a large transmembrane protein with up to 12 predicted
membrane spanning regions in bacteria and up to 11 such
in archaea, with the N-terminal within the cytoplasm.
TctA is thought to be a permease, and in most other
bacteria functions without TctB and TctC molecules.
Length = 418
Score = 29.7 bits (68), Expect = 0.89
Identities = 10/45 (22%), Positives = 23/45 (51%), Gaps = 7/45 (15%)
Query: 3 TIIGLFITILCIIGGFYAMGGNPYILIQPFEIVIVAGAGLGGFVM 47
I+ I + C++G YA+ + F++ ++ G+ G++M
Sbjct: 369 RILYPIILVFCVVGA-YAINNSM------FDVWVMLVFGVLGYLM 406
>gnl|CDD|33602 COG3808, OVP1, Inorganic pyrophosphatase [Energy production and
conversion].
Length = 703
Score = 28.7 bits (64), Expect = 1.8
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 164 AISHMGESLPAIGIVGAILGIIKAMGNLSQSPKILGTAIGVSLTGTLLGIILSYSLCNPL 223
A+ +LPAI IV I+ + G + GTAI + G+I++ P+
Sbjct: 385 AVGLESTALPAIVIVIGIIITYQLAG-------LYGTAIAAVGMLSTAGMIVALDAYGPV 437
Query: 224 T 224
T
Sbjct: 438 T 438
>gnl|CDD|132754 cd07069, NR_LBD_Lrh-1, The ligand binding domain of the liver
receptor homolog-1, a member of nuclear receptor
superfamily,. The ligand binding domain (LBD) of the
liver receptor homolog-1 (LRH-1): LRH-1 belongs to
nuclear hormone receptor superfamily, and is expressed
mainly in the liver, intestine, exocrine pancreas, and
ovary. Most nuclear receptors function as homodimer or
heterodimers. However, LRH-1 binds DNA as a monomer, and
is a regulator of bile-acid homeostasis,
steroidogenesis, reverse cholesterol transport and the
initial stages of embryonic development. Recently,
phospholipids have been identified as potential ligand
for LRH-1 and steroidogenic factor-1 (SF-1). Like other
members of the nuclear receptor (NR) superfamily of
ligand-activated transcription factors, LRH-1 has a
central well conserved DNA binding domain (DBD), a
variable N-terminal domain, a flexible hinge and a
C-terminal ligand binding domain (LBD).
Length = 241
Score = 28.5 bits (63), Expect = 2.3
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 241 VKKALIAYMNGAIPQVAIEYGRKVLPLSERPSIEIVAQEVLQYNH 285
V AL+ Y PQ ++G+ +L L E +I + A+E L Y H
Sbjct: 177 VNAALLDYTMCNYPQQTEKFGQLLLRLPEIRAISMQAEEYLYYKH 221
>gnl|CDD|32255 COG2072, TrkA, Predicted flavoprotein involved in K+ transport
[Inorganic ion transport and metabolism].
Length = 443
Score = 27.7 bits (61), Expect = 3.8
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 35 VIVAGAGLGGFVMANPLKVIKDSGVSLLEIF 65
V + GAG G A +K +GV IF
Sbjct: 11 VAIIGAGQSGLAAA---YALKQAGVPDFVIF 38
>gnl|CDD|176976 CHL00035, psbC, photosystem II 44 kDa protein.
Length = 473
Score = 27.4 bits (61), Expect = 4.3
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 8/34 (23%)
Query: 1 MSTIIG--LFITILCIIGGFYAMGGNPYILIQPF 32
+ IIG +++ +CI+GG + +IL +PF
Sbjct: 230 LEDIIGGHVWLGSICILGGIW------HILTKPF 257
>gnl|CDD|144095 pfam00375, SDF, Sodium:dicarboxylate symporter family.
Length = 387
Score = 27.1 bits (61), Expect = 5.4
Identities = 8/45 (17%), Positives = 20/45 (44%)
Query: 177 IVGAILGIIKAMGNLSQSPKILGTAIGVSLTGTLLGIILSYSLCN 221
+ +I+ I ++G+ + K+ G + L T + I+ +
Sbjct: 45 VFFSIVSGIASLGDGKKLGKLGGKTLLYFLVTTAIAAIIGLLVAL 89
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
0.322 0.141 0.402
Gapped
Lambda K H
0.267 0.0553 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,497,421
Number of extensions: 194067
Number of successful extensions: 629
Number of sequences better than 10.0: 1
Number of HSP's gapped: 620
Number of HSP's successfully gapped: 39
Length of query: 290
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 197
Effective length of database: 4,254,100
Effective search space: 838057700
Effective search space used: 838057700
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: 57 (26.1 bits)