RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780412|ref|YP_003064825.1| hypothetical protein
CLIBASIA_01485 [Candidatus Liberibacter asiaticus str. psy62]
(94 letters)
>gnl|CDD|114945 pfam06253, MTTB, Trimethylamine methyltransferase (MTTB). This
family consists of several trimethylamine
methyltransferase (MTTB) (EC:2.1.1.-) proteins from
numerous Rhizobium and Methanosarcina species.
Length = 505
Score = 29.3 bits (66), Expect = 0.20
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 7/56 (12%)
Query: 12 ASRLASCASDAFKDISKEAESFAQIKIQRTLNSMGVVRAEEIENVKRTTSHLREEI 67
A R A S ++ + ++ E++E + R + + EE+
Sbjct: 7 AGRRAMRGGPGAPQPS-------FPRLVNPIPPYQLLSDEQLERIHRASLRILEEV 55
>gnl|CDD|163223 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins.
Length = 852
Score = 28.4 bits (64), Expect = 0.44
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 14/63 (22%)
Query: 31 ESFAQIKIQRTLNSMGVVRAEEIENVKRTTSHLREEITAIGK--------RLEKIEQQLA 82
E+ A+I+++ ++S EE++ + R L E A+ K RLE +E++LA
Sbjct: 391 EAAARIRME--IDSK----PEELDELDRRIIQLEIEREALKKEKDEASKERLEDLEKELA 444
Query: 83 DLE 85
+LE
Sbjct: 445 ELE 447
>gnl|CDD|182605 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 28.2 bits (63), Expect = 0.49
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 60 TSHLREEITAIGKRLEKIEQQLADLE 85
T LR+EI + K +EK+ QLA E
Sbjct: 558 TQPLRKEIARLEKEMEKLNAQLAQAE 583
>gnl|CDD|162062 TIGR00839, aspA, aspartate ammonia-lyase. Fumarate hydratase
scores as high as 570 bits against this model.
Length = 468
Score = 27.9 bits (62), Expect = 0.60
Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 25/87 (28%)
Query: 21 DAFKDISKEAESFAQIKIQRT-------------LNSMGVVRAEEIENVKRTTSHLRE-- 65
D F+ +KE +K+ RT + ++ EE++N+KRT L E
Sbjct: 167 DGFEQKAKEFADI--LKMGRTQLQDAVPMTLGQEFEAFSILLEEEVKNIKRTAELLLEVN 224
Query: 66 -EITAIGKRL-------EKIEQQLADL 84
TAIG L + ++LA++
Sbjct: 225 LGATAIGTGLNTPPEYSPLVVKKLAEV 251
>gnl|CDD|177553 PHA03185, PHA03185, UL14 tegument protein; Provisional.
Length = 214
Score = 27.3 bits (60), Expect = 0.94
Identities = 20/68 (29%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 19 ASDAFKDISKEAESFAQIKIQRTLNSMGVVRAEE-IENVKRTTSHLREEITAIGKRLEKI 77
A A +++ +S A++++ R + +R EE E +H R A+G+RL++
Sbjct: 50 AKAAHRELEARLKSRARLEMLRQHAACVKIRVEEQAERRDFLIAHRRYLDPALGERLDEA 109
Query: 78 EQQLADLE 85
E +LAD E
Sbjct: 110 EDRLADQE 117
>gnl|CDD|180249 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 26.4 bits (59), Expect = 1.5
Identities = 15/87 (17%), Positives = 39/87 (44%), Gaps = 3/87 (3%)
Query: 5 SNQFFQQASRLASCASDAFKDISKEAESFAQIKIQRTLNSMGVVRAEEIEN-VKRTTSHL 63
SN+ ++ L + S+A + ++ ++ + V EE+ V+ +
Sbjct: 41 SNERLRKLRSLLTKLSEALDKLRSYLPKLNPLREEK--KKVSVKSLEELIKDVEEELEKI 98
Query: 64 REEITAIGKRLEKIEQQLADLELFINQ 90
+EI + + + ++E ++ +LE I +
Sbjct: 99 EKEIKELEEEISELENEIKELEQEIER 125
>gnl|CDD|163162 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like).
Length = 351
Score = 26.7 bits (60), Expect = 1.5
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 62 HLREEITAIGKRLEKIEQQ 80
+RE I + K LEK+E+Q
Sbjct: 158 LIRERIAQLKKELEKVEKQ 176
>gnl|CDD|182934 PRK11058, PRK11058, GTPase HflX; Provisional.
Length = 426
Score = 26.2 bits (58), Expect = 1.8
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 63 LREEITAIGKRLEKIEQQ 80
LR I I RLE++E+Q
Sbjct: 167 LRNRIVQILSRLERVEKQ 184
>gnl|CDD|148090 pfam06273, eIF-4B, Plant specific eukaryotic initiation factor 4B.
This family consists of several plant specific
eukaryotic initiation factor 4B proteins.
Length = 430
Score = 26.1 bits (57), Expect = 1.8
Identities = 21/61 (34%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 37 KIQRTLNSMGVVRAEEIENVKRTTSHLREEITAIGKRLEKIE---QQLADLELFINQKEK 93
KI L V R E E +L+EEI + K L+K E + I QKEK
Sbjct: 294 KIDLELEHRRVDRPETEEE-----KNLKEEIELLKKELQKEEARXPKSKGSSELIRQKEK 348
Query: 94 E 94
E
Sbjct: 349 E 349
>gnl|CDD|183393 PRK12273, aspA, aspartate ammonia-lyase; Provisional.
Length = 472
Score = 26.2 bits (59), Expect = 1.9
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 29/89 (32%)
Query: 21 DAFKDISKEAESFAQI-KIQRT-------------LNSMGVVRAEEIENVKRTTSHLREE 66
+AF+ +KE FA I K+ RT + V AE+ + + R LR E
Sbjct: 171 EAFEAKAKE---FADILKMGRTQLQDAVPMTLGQEFGAYAVALAEDRKRLYRAAELLR-E 226
Query: 67 I----TAIGKRL-------EKIEQQLADL 84
+ TAIG L E + ++LA++
Sbjct: 227 VNLGATAIGTGLNAPPGYIELVVEKLAEI 255
>gnl|CDD|163395 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 26.1 bits (58), Expect = 2.0
Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 8/81 (9%)
Query: 14 RLASCASDAFKDISKEAESFAQIKIQRTLNSMGVVRAEEIENVKRTTSHLREEITAIGKR 73
R+ A +A + +E E ++ + + + V + E VKR EE K
Sbjct: 729 RIEFAAGEAALEYIQELED----LLRESSDILKVPPEQLPETVKR----FFEEWKEQRKE 780
Query: 74 LEKIEQQLADLELFINQKEKE 94
+E+++++LA+L+++ E E
Sbjct: 781 IERLKKKLAELKIYELISEAE 801
>gnl|CDD|179074 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 25.8 bits (58), Expect = 2.6
Identities = 9/30 (30%), Positives = 20/30 (66%)
Query: 63 LREEITAIGKRLEKIEQQLADLELFINQKE 92
+ +++ A+ +R E++E L+D E+ +QK
Sbjct: 4 MLDKLEALEERYEELEALLSDPEVISDQKR 33
>gnl|CDD|178488 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 25.7 bits (57), Expect = 2.7
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 45 MGVVRAEEIENVKRTTSHLREEITAIGKRLEKIEQQLADL 84
G V E +N KR T + EE + GK LEK ++
Sbjct: 360 SGDVFPEVKKNEKRITEIIAEEELSFGKTLEKGIEKFKKA 399
>gnl|CDD|184312 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 25.7 bits (57), Expect = 2.8
Identities = 26/70 (37%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 21 DAFKDISKEAESFAQIKIQRTL---NSMGVVR-AEEI---ENVKRTTSHLREEITAIGKR 73
DA ++I +EA+ A K TL + G+VR A +I E + TT E + K
Sbjct: 343 DAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTT---AEHVLEAKKI 399
Query: 74 LEKIEQQLAD 83
IEQQLAD
Sbjct: 400 ARSIEQQLAD 409
>gnl|CDD|183309 PRK11778, PRK11778, putative inner membrane peptidase; Provisional.
Length = 330
Score = 25.6 bits (57), Expect = 2.9
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 60 TSHLREEITAI 70
LREEITAI
Sbjct: 106 VESLREEITAI 116
>gnl|CDD|182611 PRK10642, PRK10642, proline/glycine betaine transporter;
Provisional.
Length = 490
Score = 25.1 bits (55), Expect = 4.1
Identities = 7/23 (30%), Positives = 16/23 (69%)
Query: 63 LREEITAIGKRLEKIEQQLADLE 85
L E I ++++ I+Q++A+L+
Sbjct: 454 LVEHYDNIEQKIDDIDQEIAELQ 476
>gnl|CDD|162740 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent.
Length = 1164
Score = 25.0 bits (55), Expect = 4.2
Identities = 21/84 (25%), Positives = 40/84 (47%), Gaps = 9/84 (10%)
Query: 11 QASRLASCASDAFKDISKEAESFAQIKIQRTLNSMGVVRAEEIENVKRTTSHLREEITAI 70
+ S+ S AS +I KE E Q + L E +E ++ S L +EI +
Sbjct: 706 ELSQELSDASRKIGEIEKEIEQLEQE--EEKLK-------ERLEELEEDLSSLEQEIENV 756
Query: 71 GKRLEKIEQQLADLELFINQKEKE 94
L+++E ++ +LE +++ E+
Sbjct: 757 KSELKELEARIEELEEDLHKLEEA 780
Score = 25.0 bits (55), Expect = 4.4
Identities = 11/72 (15%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 23 FKDISKEAESFAQIKIQRTLNSMGVVRAEEIENVKRTTSHLREEITAIGKRLEKIEQQLA 82
++ + KE + ++ + ++ + E ++R + L EE+ + + + ++E++L
Sbjct: 213 YQALLKEKREYEGYELLKEKEAL----ERQKEAIERQLASLEEELEKLTEEISELEKRLE 268
Query: 83 DLELFINQKEKE 94
++E + + K+
Sbjct: 269 EIEQLLEELNKK 280
Score = 23.9 bits (52), Expect = 9.3
Identities = 10/44 (22%), Positives = 23/44 (52%)
Query: 51 EEIENVKRTTSHLREEITAIGKRLEKIEQQLADLELFINQKEKE 94
E+ ++K + +EI + + E++E++L +LE + E
Sbjct: 840 EQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESR 883
>gnl|CDD|184382 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 24.8 bits (55), Expect = 4.5
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 37 KIQRTLNSMGVVRAEEIENVKRTTSHLREEITAIGKRLEKIEQQLADLELFINQKEKE 94
++ +GV + + V+R EE K +EK+ ++LA+L + E
Sbjct: 744 LLKEAAEILGVPPEQLPKTVER----FFEEWKEQKKEIEKLRKELAELLASELLSKAE 797
>gnl|CDD|149519 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 24.8 bits (55), Expect = 5.3
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 60 TSHLREEITAI 70
LREEITAI
Sbjct: 113 VESLREEITAI 123
>gnl|CDD|161830 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the
reaction (tRNAala + L-alanine + ATP = L-alanyl-tRNAala
+ pyrophosphate + AMP).
Length = 851
Score = 24.7 bits (54), Expect = 6.4
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 40 RTLNSMGVVRAEEIENVKRTTSHL 63
R +N+ +R +IENV RT H
Sbjct: 55 RLVNAQPCIRLNDIENVGRTARHH 78
>gnl|CDD|180144 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 24.0 bits (53), Expect = 8.1
Identities = 11/23 (47%), Positives = 15/23 (65%), Gaps = 4/23 (17%)
Query: 67 ITAIGKRLEKIEQQLADLELFIN 89
+ AI +RLE+ EQ L LF+N
Sbjct: 356 LEAIKQRLERGEQVL----LFLN 374
>gnl|CDD|150352 pfam09660, DUF2397, Protein of unknown function (DUF2397).
Proteins in this entry are encoded within a conserved
gene four-gene neighbourhood found sporadically in a
phylogenetically broad range of bacteria including:
Nocardia farcinica, Symbiobacterium thermophilum, and
Streptomyces avermitilis (Actinobacteria), Geobacillus
kaustophilus (Firmicutes), Azoarcus sp. EbN1 and
Ralstonia solanacearum (Betaproteobacteria).
Length = 478
Score = 24.2 bits (53), Expect = 8.3
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 58 RTTSHLREEITAIGKRLEKIEQQLADLE 85
+LR+ I + +R KI L LE
Sbjct: 187 LLIDYLRDFIRDLQRRSAKIAAALRALE 214
>gnl|CDD|179675 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 23.9 bits (52), Expect = 9.0
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 51 EEIENVKRTTSHLREEITAIGKRLEKIEQQLADLELFINQKEK 93
E++E + L+EEI + K LE +E LE I + E+
Sbjct: 224 EKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEE 266
>gnl|CDD|131666 TIGR02617, tnaA_trp_ase, tryptophanase, leader
peptide-associated. Members of this family belong to
the beta-eliminating lyase family (pfam01212) and act
as tryptophanase (L-tryptophan indole-lyase). The
tryptophanases of this family, as a rule, are found
with a tryptophanase leader peptide (TnaC) encoded
upstream. Both tryptophanases (4.1.99.1) and tyrosine
phenol-lyases (EC 4.1.99.2) are found between trusted
and noise cutoffs, but this model captures nearly all
tryptophanases for which the leader peptide gene tnaC
can be found upstream.
Length = 467
Score = 23.7 bits (51), Expect = 9.6
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 49 RAEEIENVKRTTSHLREE 66
R IE VKRTT RE+
Sbjct: 8 RIRVIEPVKRTTRAYREK 25
>gnl|CDD|179861 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 23.8 bits (51), Expect = 9.9
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 60 TSHLREEITAIGKRLEKIEQQLADLELFINQK 91
T+ L EE AI E+ L D+E +I QK
Sbjct: 348 TARLGEEGDAISFACERYAMSLPDIEAYIEQK 379
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
0.315 0.126 0.320
Gapped
Lambda K H
0.267 0.0691 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,441,858
Number of extensions: 79750
Number of successful extensions: 486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 176
Length of query: 94
Length of database: 5,994,473
Length adjustment: 62
Effective length of query: 32
Effective length of database: 4,654,777
Effective search space: 148952864
Effective search space used: 148952864
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.1 bits)