RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780891|ref|YP_003065304.1| hypothetical protein
CLIBASIA_03940 [Candidatus Liberibacter asiaticus str. psy62]
(215 letters)
>gnl|CDD|150730 pfam10090, DUF2328, Uncharacterized protein conserved in bacteria
(DUF2328). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 181
Score = 131 bits (333), Expect = 9e-32
Identities = 66/185 (35%), Positives = 98/185 (52%), Gaps = 7/185 (3%)
Query: 30 IGAIHNSLELLDEVG--IEDEVMQLIRLSSMSAIIRLKFMRLAFGYTGSVDSLIGLGDIE 87
+GAI N LELLD+ G M LIR S+ +A RL+F RLAFG G+ I L + +
Sbjct: 1 VGAIVNGLELLDDEGDPEMGPEMALIRESARNASARLRFFRLAFGAAGA-GQQIDLAEAK 59
Query: 88 QVIEDFIAVDKRVQVSWTGEKIDLSRERAKILLNLFMVAHASLPRGGKVTISVQDSKNEN 147
V+E ++A R+ + W E+ L + K+LLNL ++A +LPRGG++ + S
Sbjct: 60 SVLEGYLA-GGRITLDWQLERDLLPKPEVKLLLNLLLIAEDALPRGGEIDVGEG-SDGAG 117
Query: 148 IFSLKINGNLARFPEKFTQIVDGN-VESTIDSHDIQFYYVILLAHENKIRLLPEIIDDHN 206
+ + G R + G E +D+ ++QFY + LLA E L EI +D
Sbjct: 118 GWRVTAEGERLRIDPDLWAALAGGAPEEELDARNVQFYLLPLLAREAGGTLSYEITEDG- 176
Query: 207 VVLSA 211
+VLSA
Sbjct: 177 IVLSA 181
>gnl|CDD|182411 PRK10364, PRK10364, sensor protein ZraS; Provisional.
Length = 457
Score = 31.7 bits (72), Expect = 0.16
Identities = 7/28 (25%), Positives = 19/28 (67%)
Query: 117 KILLNLFMVAHASLPRGGKVTISVQDSK 144
++LLNL++ A ++ + G ++++ +S
Sbjct: 351 QVLLNLYLNAIQAIGQHGVISVTASESG 378
>gnl|CDD|173474 PTZ00198, PTZ00198, 60S ribosomal protein L22; Provisional.
Length = 122
Score = 30.0 bits (68), Expect = 0.52
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 78 DSLIGLGDIEQVIEDFIAVDKRVQVSWTGEKIDLSRERAKI 118
D +I L EQ ++D I VD + G K+ +SRE+ KI
Sbjct: 31 DGIIDLSGFEQFLQDRIKVDGKT--GNLGNKVRVSREKNKI 69
>gnl|CDD|182962 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
Length = 475
Score = 29.0 bits (66), Expect = 1.0
Identities = 36/167 (21%), Positives = 63/167 (37%), Gaps = 33/167 (19%)
Query: 24 HDIISPIGAIHNSLELLDEVGIEDEVMQL----IRLSS--MSAIIRLKFMRLAFGYTGSV 77
H++ SP+ AI + ELL E E I S + +I + + LA +
Sbjct: 265 HELKSPLAAIRGAAELLQE-DPPPEDRARFTGNILTQSARLQQLID-RLLELA-----RL 317
Query: 78 DSLIGLGDIEQV-----IEDFI------AVDKRVQVSWTGEKIDLSRERAKI---LLNLF 123
+ L +E V +E+ + A K + + + + + + L NL
Sbjct: 318 EQRQELEVLEPVALAALLEELVEAREAQAAAKGITLRLRPDDARVLGDPFLLRQALGNLL 377
Query: 124 MVAHASLPRGGKVTISVQDSKNENIFSLKINGN------LARFPEKF 164
A P GG +T+S + + S++ G L R E+F
Sbjct: 378 DNAIDFSPEGGTITLSAEVDGEQVALSVEDQGPGIPDYALPRIFERF 424
>gnl|CDD|178584 PLN03007, PLN03007, UDP-glucosyltransferase family protein.
Length = 482
Score = 28.3 bits (63), Expect = 1.4
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 81 IGLGDIEQVIEDFIA---VDKRVQVSWTGEKIDLSRERAKILLNLFMVAHASLPRGG 134
+G + +V DFI+ V+K V+ GE+ + R RAK L + A A++ GG
Sbjct: 412 VGAKKLVKVKGDFISREKVEKAVREVIVGEEAEERRLRAKKLAEM---AKAAVEEGG 465
>gnl|CDD|163564 TIGR03852, sucrose_gtfA, sucrose phosphorylase. In the forward
direction, this enzyme uses phosphate to cleave sucrose
into D-fructose + alpha-D-glucose 1-phosphate.
Characterized representatives from Streptococcus mutans
and Bifidobacterium adolescentis represent
well-separated branches of a molecular phylogenetic
tree. In S. mutans, the region including this gene has
been associated with neighboring transporter genes and
multiple sugar metabolism.
Length = 470
Score = 28.5 bits (64), Expect = 1.4
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 182 QFYYVILLAHENKIRLLPEIIDDHNV 207
Q YYV LLA +N I LL E + N+
Sbjct: 365 QVYYVGLLAGKNDIELLEETKEGRNI 390
>gnl|CDD|183765 PRK12815, carB, carbamoyl phosphate synthase large subunit; Reviewed.
Length = 1068
Score = 28.4 bits (64), Expect = 1.5
Identities = 24/106 (22%), Positives = 41/106 (38%), Gaps = 8/106 (7%)
Query: 105 TGEKIDLSRERAKILLNLFMVAHASLPRGGKVTISVQDSKNENIFSLKINGNLARFPEK- 163
TGE + + ++ + L + + +P G + ISV+D + L RF +
Sbjct: 909 TGEVMGIDKDLEEALYKGYEASDLHIPSYGTIFISVRDEDKPEVTKLA-----RRFAQLG 963
Query: 164 FTQIVDGNVESTIDSHDIQFYYVILLAHENKIRLLPEIIDDHNVVL 209
F + + + I V+ E LL E I H +VL
Sbjct: 964 FKLLATEGTANWLAEEGITT-GVVEKVQEGSPSLL-ERIKQHRIVL 1007
>gnl|CDD|179998 PRK05294, carB, carbamoyl phosphate synthase large subunit;
Reviewed.
Length = 1066
Score = 27.8 bits (63), Expect = 2.4
Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 17/81 (20%)
Query: 79 SLIGLGDIEQVIEDFIAVDKRVQVSW----------------TGEKIDLSRERAKILLNL 122
L LG + +I ++AV K + TGE + + R +
Sbjct: 868 KLAELGYTKGLIPPYVAV-KEAVFPFNKFPGVDPLLGPEMKSTGEVMGIDRTFGEAFAKA 926
Query: 123 FMVAHASLPRGGKVTISVQDS 143
+ A LP G V +SV+D
Sbjct: 927 QLAAGNRLPTSGTVFLSVRDR 947
>gnl|CDD|178834 PRK00062, PRK00062, glutamate-1-semialdehyde aminotransferase;
Provisional.
Length = 426
Score = 27.7 bits (63), Expect = 2.4
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 12/32 (37%)
Query: 50 MQLIRL-SS-----MSAIIRLKFMRLAFGYTG 75
++++R+ +S MSAI RLA GYTG
Sbjct: 106 IEMVRMVNSGTEATMSAI------RLARGYTG 131
>gnl|CDD|163497 TIGR03785, marine_sort_HK, proteobacterial dedicated sortase system
histidine kinase. This histidine kinase protein is
paired with an adjacent response regulator (TIGR03787)
gene. It co-occurs with a variant sortase enzyme
(TIGR03784), usually in the same gene neighborhood, in
proteobacterial species most of which are marine, and
with an LPXTG motif-containing sortase target conserved
protein (TIGR03788). Sortases and LPXTG proteins are far
more common in Gram-positive bacteria, where sortase
systems mediate attachment to the cell wall or
cross-linking of pilin structures. We give this
predicted sensor histidine kinase the gene symbol psdS,
for Proteobacterial Dedicated Sortase system Sensor
histidine kinase.
Length = 703
Score = 27.4 bits (61), Expect = 3.0
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 12/57 (21%)
Query: 20 SRICHDIISPIGAIHNSLELLDEVGIEDEVMQLI--------RLS----SMSAIIRL 64
SR+ H++ +P+ + +SLE L+ +E E + + RLS +MS RL
Sbjct: 490 SRLSHELRTPVAVVRSSLENLELQALEQEKQKYLERAREGTERLSMILNNMSEATRL 546
>gnl|CDD|185053 PRK15098, PRK15098, beta-D-glucoside glucohydrolase; Provisional.
Length = 765
Score = 26.2 bits (58), Expect = 6.5
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 30 IGAIHNSLELLDEVGIEDEVMQLIRL 55
+GAI N++ D ++D+VMQL RL
Sbjct: 77 VGAIFNTVTRQDIRAMQDQVMQLSRL 102
>gnl|CDD|163113 TIGR03030, CelA, cellulose synthase catalytic subunit
(UDP-forming). Cellulose synthase catalyzes the
beta-1,4 polymerization of glucose residues in the
formation of cellulose. In bacteria, the substrate is
UDP-glucose. The synthase consists of two subunits (or
domains in the frequent cases where it is encoded as a
single polypeptide), the catalytic domain modelled here
and the regulatory domain (pfam03170). The regulatory
domain binds the allosteric activator cyclic di-GMP. The
protein is membrane-associated and probably assembles
into multimers such that the individual cellulose
strands can self-assemble into multi-strand fibrils.
Length = 713
Score = 26.2 bits (58), Expect = 7.4
Identities = 14/81 (17%), Positives = 24/81 (29%), Gaps = 2/81 (2%)
Query: 103 SWTGEKIDLSRERAKILLNLFMVAHASLPRGGKVTISVQDSKNENIFSLKINGNLARFPE 162
D S I +N L G V I + + + ++ G A
Sbjct: 590 WVEATVEDASVGGLGIKINAQGAPGPQLGAGVLVQIRPKRNGLPALKPARVRG--AGGVM 647
Query: 163 KFTQIVDGNVESTIDSHDIQF 183
+ NV+ + D+ F
Sbjct: 648 IGLEFSPLNVQQVREIVDLVF 668
>gnl|CDD|178336 PLN02735, PLN02735, carbamoyl-phosphate synthase.
Length = 1102
Score = 25.9 bits (57), Expect = 7.9
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 15/85 (17%)
Query: 79 SLIGLGDIEQVIEDFIAVDKRV---------------QVSWTGEKIDLSRERAKILLNLF 123
SL LG E+VI ++V + V ++ TGE + + E +K
Sbjct: 903 SLKDLGFTEEVIPAHVSVKEAVLPFDKFQGCDVLLGPEMRSTGEVMGIDYEFSKAFAKAQ 962
Query: 124 MVAHASLPRGGKVTISVQDSKNENI 148
+ A LP G V IS+ D ++
Sbjct: 963 IAAGQRLPLSGTVFISLNDLTKPHL 987
>gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 26.1 bits (58), Expect = 8.0
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 107 EKIDLSRERAK-ILLNLFMVAHASLPRGGKVTISVQDSKNENI 148
I E K +LLN+ + A ++ GK+ I + +
Sbjct: 492 PPIWADPELLKQVLLNILINAVQAISARGKIRIRTWQYSDGQV 534
>gnl|CDD|172294 PRK13756, PRK13756, tetracycline repressor protein TetR;
Provisional.
Length = 205
Score = 25.6 bits (56), Expect = 9.5
Identities = 10/14 (71%), Positives = 13/14 (92%)
Query: 33 IHNSLELLDEVGIE 46
I ++LELL+EVGIE
Sbjct: 10 IDSALELLNEVGIE 23
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 0.140 0.390
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,481,389
Number of extensions: 222983
Number of successful extensions: 444
Number of sequences better than 10.0: 1
Number of HSP's gapped: 441
Number of HSP's successfully gapped: 31
Length of query: 215
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 126
Effective length of database: 4,071,361
Effective search space: 512991486
Effective search space used: 512991486
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 (21.9 bits)
S2: 55 (25.1 bits)