RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|255764512|ref|YP_003065529.2| preprotein tranlocase protein
[Candidatus Liberibacter asiaticus str. psy62]
(108 letters)
>gnl|CDD|180149 PRK05585, yajC, preprotein translocase subunit YajC; Validated.
Length = 106
Score = 87.3 bits (217), Expect = 9e-19
Identities = 32/99 (32%), Positives = 59/99 (59%), Gaps = 3/99 (3%)
Query: 9 SDAPAITSA--TSPLEMAGLFFVLAVVWYFLLIRPQRQQLQRRAEMLRNLRRGDSIVTAA 66
S+A A +A S L V ++YFL+IRPQ+++ + +ML +L +GD +VT
Sbjct: 4 SNAYAQAAAPAGSGLSSLLPLVVFFAIFYFLIIRPQQKRQKEHKKMLSSLAKGDEVVTNG 63
Query: 67 GIVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105
GI+GKV +V +D + +E+ ++ +++ +S ++ V K
Sbjct: 64 GIIGKVTKVSEDF-VIIELNDDTEIKIQKSAIAAVLPKG 101
>gnl|CDD|162016 TIGR00739, yajC, preprotein translocase, YajC subunit. While this
protein is part of the preprotein translocase in
Escherichia coli, it is not essential for viability or
protein secretion. The N-terminus region contains a
predicted membrane-spanning region followed by a region
consisting almost entirely of residues with charged
(acidic, basic, or zwitterionic) side chains. This small
protein is about 100 residues in length, and is
restricted to bacteria; however, this protein is absent
from some lineages, including spirochetes and
Mycoplasmas.
Length = 84
Score = 66.6 bits (163), Expect = 1e-12
Identities = 23/85 (27%), Positives = 51/85 (60%), Gaps = 1/85 (1%)
Query: 19 SPLEMAGLFFVLAVVWYFLLIRPQRQQLQRRAEMLRNLRRGDSIVTAAGIVGKVVRVIDD 78
S L ++ +++YFL+IRPQR++ + +++ +L++GD ++T GI+G V + I +
Sbjct: 1 SFLTTLLPLVLIFLIFYFLIIRPQRKRRKAHKKLIESLKKGDKVLTIGGIIGTVTK-IAE 59
Query: 79 LELEVEIAENVRVRVVRSFVSEVQS 103
+ +E+ +N + ++ + EV
Sbjct: 60 NTIVIELNDNTEITFSKNAIVEVLP 84
>gnl|CDD|180609 PRK06531, yajC, preprotein translocase subunit YajC; Validated.
Length = 113
Score = 35.9 bits (83), Expect = 0.002
Identities = 17/50 (34%), Positives = 28/50 (56%)
Query: 26 LFFVLAVVWYFLLIRPQRQQLQRRAEMLRNLRRGDSIVTAAGIVGKVVRV 75
+ FV+ + F + R Q++Q Q R L +++GD +VT G+ G V V
Sbjct: 7 IMFVVMLGLIFFMQRQQKKQAQERQNQLNAIQKGDEVVTIGGLYGTVDEV 56
>gnl|CDD|168286 PRK05886, yajC, preprotein translocase subunit YajC; Validated.
Length = 109
Score = 30.6 bits (69), Expect = 0.088
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 36 FLLIRPQRQQLQRRAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENV 89
+ R QR+ +Q ++ +L+ GD + T +G+ +V + DD +++EIA V
Sbjct: 19 YFASRRQRKAMQATIDLHESLQPGDRVHTTSGLQATIVGITDD-TVDLEIAPGV 71
>gnl|CDD|183890 PRK13200, psaA, photosystem I P700 chlorophyll a apoprotein A1;
Provisional.
Length = 766
Score = 26.7 bits (59), Expect = 1.4
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 5 VYAQSDAPAITSATSPLEMAGLFFVLA-VVWYFLLI 39
++AQ+ + I S S L GL F+ A VW F L+
Sbjct: 665 LWAQA-SQVINSYGSALSAYGLMFLGAHFVWAFSLM 699
>gnl|CDD|179265 PRK01259, PRK01259, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 309
Score = 26.2 bits (59), Expect = 1.9
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 73 VRVIDDLELEVEIAENVRVRVVRSFVSEVQSKSEPV 108
V D E+ VEI ENVR + V F+ +QS P
Sbjct: 29 VGRFSDGEISVEINENVRGKDV--FI--IQSTCAPT 60
>gnl|CDD|162278 TIGR01272, gluP, glucose/galactose transporter. Disruption of the
loci leads to the total loss of glucose or galactose
uptake in E.coli. Putative transporters in other
bacterial species were isolated by functional
complementation, which restored it functional activity.
Length = 310
Score = 25.6 bits (56), Expect = 2.7
Identities = 13/54 (24%), Positives = 24/54 (44%)
Query: 7 AQSDAPAITSATSPLEMAGLFFVLAVVWYFLLIRPQRQQLQRRAEMLRNLRRGD 60
A ++A A T L +AG VLA+++ FL + ++ R ++
Sbjct: 82 ATANAEAAKVHTPYLLLAGALAVLAIIFAFLPLPELQEADVARVSSGDTTQKTS 135
>gnl|CDD|181802 PRK09367, PRK09367, histidine ammonia-lyase; Provisional.
Length = 500
Score = 25.5 bits (57), Expect = 2.9
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 39 IRPQRQQLQRRAEMLRNLRRGDSIVTAAGIVGKV 72
+R Q+ A LR L G SI+T++ +V
Sbjct: 244 LRGHPGQIDV-AANLRALLEGSSIITSSHDCERV 276
>gnl|CDD|182846 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 25.4 bits (56), Expect = 3.2
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 15/43 (34%)
Query: 33 VWYFLL-----IRP----QRQQL------QRRAEMLRNLRRGD 60
+W+ LL IR QR+++ QRRAE+L RG+
Sbjct: 709 IWFLLLVVYHIIRRWMLIQRRRIAFDRAKQRRAEILAQRARGE 751
>gnl|CDD|152094 pfam11658, DUF3260, Protein of unknown function (DUF3260). Some
members in this family of proteins are annotated as YhjU
however this cannot be confirmed. Currently this family
has no known function.
Length = 516
Score = 25.3 bits (56), Expect = 3.4
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 20 PLEMAGLFFVLAVVWYFL 37
+M FVL V + L
Sbjct: 93 NWQMLLALFVLLVAYLLL 110
>gnl|CDD|150768 pfam10131, PTPS_related, 6-pyruvoyl-tetrahydropterin synthase
related domain; membrane protein. This domain is found
in various bacterial hypothetical membrane proteins, as
well as in tetratricopeptide TPR_2 repeat protein. The
exact function of the domain has not, as yet, been
established.
Length = 620
Score = 25.1 bits (55), Expect = 4.4
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 27 FFVLAVVWYFLLIRPQRQ 44
FFV A+ WYF R R+
Sbjct: 34 FFVGALGWYFWGRRTGRR 51
>gnl|CDD|132411 TIGR03368, cellulose_yhjU, cellulose synthase operon protein YhjU.
This protein was identified by the partial phylogenetic
profiling algorithm (PubMed:16930487) as part of the
system for cellulose biosynthesis in bacteria, and in
fact is found in cellulose biosynthesis gene regions.
The protein was designated YhjU in Salmonella
enteritidis, where disruption of its gene disrupts
cellulose biosynthesis and biofilm formation
(PubMed:11929533).
Length = 518
Score = 25.0 bits (55), Expect = 5.0
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 20 PLEMAGLFFVLAVVWYFL 37
+M FV+ V + L
Sbjct: 94 NWQMLLAIFVVLVAYLLL 111
>gnl|CDD|184397 PRK13922, PRK13922, rod shape-determining protein MreC;
Provisional.
Length = 276
Score = 24.6 bits (54), Expect = 6.0
Identities = 6/20 (30%), Positives = 14/20 (70%)
Query: 56 LRRGDSIVTAAGIVGKVVRV 75
+++G ++ G+VG+V+ V
Sbjct: 146 VKKGMPVIDPGGLVGRVIEV 165
>gnl|CDD|169384 PRK08330, PRK08330, biotin--protein ligase; Provisional.
Length = 236
Score = 24.7 bits (54), Expect = 6.0
Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 7/45 (15%)
Query: 46 LQRRAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVE-IAENV 89
L+ E+L ++ S+ I+GK V++I D E+ VE IAE++
Sbjct: 170 LEGPGEILEEVKG-RSM-----ILGKRVKIIGDGEILVEGIAEDI 208
>gnl|CDD|163029 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are encoded
near genes for homologs of PfaB, PfaC, and/or PfaD.
Length = 2582
Score = 24.6 bits (53), Expect = 6.6
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 1/57 (1%)
Query: 49 RAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105
R +M +L G + A V +VV I + +E E V V + +V S
Sbjct: 952 RKKMDDSLNDGW-TIKQATSVPQVVEKIVEKIVEKERIVEVERIVYLTADVKVFDGS 1007
>gnl|CDD|180380 PRK06066, PRK06066, acetyl-CoA acetyltransferase; Provisional.
Length = 385
Score = 24.3 bits (53), Expect = 8.1
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 20 PLEMAGLFFVLAVVWYFLLIRPQRQQLQRRAE 51
PLE +GL +L V Y +R + Q +AE
Sbjct: 335 PLEASGLSLLLDAVEY---LRGEAGARQGKAE 363
>gnl|CDD|165951 PLN02310, PLN02310, triacylglycerol lipase.
Length = 405
Score = 24.2 bits (52), Expect = 8.6
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 2/61 (3%)
Query: 46 LQRRAEMLRNLRRGDSIVTAAGIVGKVVRVIDDLELEVEIAENVRVRVVRSFVSEVQSKS 105
+ R E R RR D +V G V DLE ++E +N V+V F+ +SK
Sbjct: 120 VSRDEESQRIGRR-DIMVAWRGTVA-PSEWFLDLETKLEHIDNTNVKVQEGFLKIYKSKD 177
Query: 106 E 106
E
Sbjct: 178 E 178
>gnl|CDD|129897 TIGR00816, tdt, C4-dicarboxylate transporter/malic acid transport
protein. spanners (TMSs).
Length = 320
Score = 23.9 bits (52), Expect = 8.9
Identities = 6/30 (20%), Positives = 10/30 (33%)
Query: 11 APAITSATSPLEMAGLFFVLAVVWYFLLIR 40
IT L +A + + + IR
Sbjct: 220 GEFITIKEPFLILAIILWGFGLWQLLFAIR 249
>gnl|CDD|171762 PRK12839, PRK12839, hypothetical protein; Provisional.
Length = 572
Score = 24.0 bits (52), Expect = 9.2
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 57 RRGDSIVTAAGIVGKVVRVIDDLELEVEI 85
RRG +V + G+++R DDL +++ +
Sbjct: 205 RRGMQLVNGTALTGRLLRSADDLGVDLRV 233
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
0.324 0.135 0.368
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,727,206
Number of extensions: 104989
Number of successful extensions: 455
Number of sequences better than 10.0: 1
Number of HSP's gapped: 454
Number of HSP's successfully gapped: 61
Length of query: 108
Length of database: 5,994,473
Length adjustment: 74
Effective length of query: 34
Effective length of database: 4,395,481
Effective search space: 149446354
Effective search space used: 149446354
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.1 bits)