RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780954|ref|YP_003065367.1| hypothetical protein
CLIBASIA_04265 [Candidatus Liberibacter asiaticus str. psy62]
(380 letters)
>gnl|CDD|147383 pfam05170, AsmA, AsmA family. The AsmA gene, whose product is
involved in the assembly of outer membrane proteins in
Escherichia coli. AsmA mutations were isolated as
extragenic suppressors of an OmpF assembly mutant. AsmA
may have a role in LPS biogenesis.
Length = 537
Score = 65.5 bits (160), Expect = 2e-11
Identities = 37/225 (16%), Positives = 83/225 (36%), Gaps = 26/225 (11%)
Query: 2 LRRVLIGLGFLFSVVLVGAFTVPLFIDWTDFREDFERQATLIVGKKIAVKGGIKIHILPF 61
+++ L L + V+L+ + D F+ +++ + G+ + + G I + P+
Sbjct: 1 MKKALKILLIILIVLLLLIIALIALFDPNYFKPTIQQKVSAASGRPLQIDGDIGRSLFPW 60
Query: 62 PSVFFKDIRIDQKEDGSFESKIEGLSMRAEFLPLLSGEIRVFDMYIDQPHLNFYLSSKGV 121
P + +++ + + +E + + LPLL+ ++++ + +D L ++G
Sbjct: 61 PHLSLENVTLGSPGGPATLVSVEQVDIWLSPLPLLTKQLQIDSILLDGASLALTRLTEGN 120
Query: 122 SNWFQRKSTMDM-IHNVI----------------LEKIHVKGGRIKIIDQESDQVYFLSD 164
NW D + N + I V G + D+ S +V D
Sbjct: 121 PNWDDLLQLRDNALPNAPTQQPQPTWDRPAWSIDISAIQVSNGVVTWDDEASKKVLNDID 180
Query: 165 LNLQISARFLNIISPLSIDSIKGSVIAEGTGNFDNKRSAFKITAN 209
L LQ+ + S+ +G D + + N
Sbjct: 181 LQLQVDP-----LYGPSVPWRN----VLISGKGDQDQQGWGSLVN 216
>gnl|CDD|32801 COG2982, AsmA, Uncharacterized protein involved in outer membrane
biogenesis [Cell envelope biogenesis, outer membrane].
Length = 648
Score = 60.0 bits (145), Expect = 9e-10
Identities = 62/326 (19%), Positives = 121/326 (37%), Gaps = 28/326 (8%)
Query: 2 LRRVLIGLGFLFSVVLVGAFTVPLFIDWTDFREDFERQATLIVGKKIAVKGGIKIHILPF 61
+R+VL+ L + +V+ V D DF++ +Q + G+ +A+ G + + P+
Sbjct: 4 MRKVLVSLLGILILVIALLAAVLPLFDPNDFKDTIVQQVSAATGRPLAINGDLGWRLWPW 63
Query: 62 PSVFFKDIRI---DQKEDGSFESKIEGLSMRAEFLPLLSGEIRVFDMYIDQPHLNFYLSS 118
PSV +DI + E ++ G S+ LPLLS ++++ + +D P + +
Sbjct: 64 PSVILEDITLSNPGAAEPHLVSAERVGASLAL--LPLLSKQLQISQIRLDGPVIRLERLA 121
Query: 119 KGVSNW-----FQRKSTMDMIH-----NVILEKIHVKGGRIKIIDQESDQVYFLSDLNLQ 168
+G +NW Q +T + + + V GR+ D+ S+QV L
Sbjct: 122 EGRNNWDAPTAPQDPNTTPSSSSASAWSFDIGSLKVDDGRVIFQDKNSEQVLDLQIEIDP 181
Query: 169 ISARFLNIISPLSIDSIKGSVIAEGTGNFDNKRSAFKITANFPAKNKAISLKIQLFPLAY 228
++ L + D ++ EGT + + TAN A + + L
Sbjct: 182 ELSKPLPFSARTGRDQRDITISGEGTKADASALGDVQGTANIEALAGKLKI-GDAAGLQG 240
Query: 229 PIIIDLFGNLFWNEKQPIYSGVFSVAGDFSKLLNLELSAKKSRLSGNFKISDGNVRISRY 288
+ S +A + A RLS + + + ++
Sbjct: 241 ASG----EGSLQADPD---SSSTRLAANILN-----DPANDGRLSLSAQSLSLLLDLTWL 288
Query: 289 KLQSILPNSSTDEDNKTKVSQDEENL 314
+L P + + V+ L
Sbjct: 289 QLPLTPPALTDGLLLASLVTAGAAAL 314
>gnl|CDD|29313 cd00236, FinO_conjug_rep, FinO bacterial conjugation repressor
domain; the basic protein FinO is part of the the two
component FinOP system which is responsible for
repressing bacterial conjugation; the FinOP system
represses the transfer (tra) operon of the F-plasmid
which encodes the proteins responsible for conjugative
transfer of this plasmid from host to recipient
Escherichia coli cells; antisense RNA, FinP is thought
to interact with traJ mRNA to occlude its ribosome
binding site, blocking traJ translation and thereby
inhibiting transcription of the tra operon; FinO
protects FinP against degradation by binding to FinP and
sterically blocking the cellular endonuclease RNase E;
FinO also also binds to the complementary stem-loop
structures in traJ mRNA and promotes duplex formation
between FinP and traJ RNA in vitro; this domain
contains two independent RNA binding regions.
Length = 146
Score = 31.9 bits (72), Expect = 0.32
Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 9/84 (10%)
Query: 186 KGSVIAEGTGNFDNKRSAFKITANFPAKNKAISLKIQLFPLAYPIIIDLFGNLFWNEKQP 245
K AE R A I N P A+ + FP +P G+ K
Sbjct: 9 KADREAELAAKKKPARQALSIYLNLPTVEYAVECLKKWFPGLFP------GDTPRLLKCG 62
Query: 246 IYSGVFSVAGDFSKLLNLELSAKK 269
I G+ D ++ N+ L+ ++
Sbjct: 63 IKDGILQ---DVAQHPNIPLTHEE 83
>gnl|CDD|39358 KOG4156, KOG4156, KOG4156, Claspin, protein mediating
phosphorylation and activation of Chk1 protein kinase in
the DNA replication checkpoint response [Cell cycle
control, cell division, chromosome partitioning, Signal
transduction mechanisms].
Length = 1329
Score = 30.7 bits (68), Expect = 0.62
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 329 NETDFFEEEEKKNKNDDLKKDDIQYSVNK---KEEKDNSHDKENQENFSGDK 377
NE EEEE++ + D ++D + V K +EE + +KE +E G++
Sbjct: 624 NEDGKEEEEEEEEEMTDESEEDGEEKVEKEEKEEELEEEEEKEEEEEEEGNQ 675
>gnl|CDD|35203 COG5644, COG5644, Uncharacterized conserved protein [Function
unknown].
Length = 869
Score = 30.9 bits (69), Expect = 0.66
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 7/86 (8%)
Query: 296 NSSTDEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEE-------KKNKNDDLKK 348
+S EDN + N + E ++ D + F + K NK+
Sbjct: 32 DSEELEDNDEQGYSFGVNSEDDEEIDSDEAFDEEDEKRFADWSFNASKSGKSNKDHKNLN 91
Query: 349 DDIQYSVNKKEEKDNSHDKENQENFS 374
+ + S+N ++ NS EN+ + S
Sbjct: 92 NTKEISLNDSDDSVNSDKLENEGSVS 117
>gnl|CDD|37249 KOG2038, KOG2038, KOG2038, CAATT-binding transcription factor/60S
ribosomal subunit biogenesis protein [Translation,
ribosomal structure and biogenesis, Transcription].
Length = 988
Score = 29.6 bits (66), Expect = 1.5
Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 300 DEDNKTKVSQDEENLLNFSENGAESMHDLNET----DFFEEEEKKNKNDDLKKDDIQYSV 355
DED + S+++ + E+ +S D ++T D FE+E+ +D+ + +
Sbjct: 885 DEDENSLGSEEDGGEEDDDEDIGDSDDDEDDTSDAEDDFEDEDDDEVDDEDGGEGGKDDA 944
Query: 356 NKKEEKDNSHDKENQEN 372
+ ++ KE N
Sbjct: 945 DISGDRSKKKKKEKGLN 961
Score = 27.3 bits (60), Expect = 7.4
Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 2/76 (2%)
Query: 296 NSSTDEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDIQYSV 355
+ D+ NK ++ D++ + E+ E + L + EE+ D D+ S
Sbjct: 861 GAEKDDKNKKDMTSDDDV--DADEDDDEDENSLGSEEDGGEEDDDEDIGDSDDDEDDTSD 918
Query: 356 NKKEEKDNSHDKENQE 371
+ + +D D+ + E
Sbjct: 919 AEDDFEDEDDDEVDDE 934
>gnl|CDD|34868 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 29.7 bits (66), Expect = 1.6
Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 6/83 (7%)
Query: 300 DEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFE------EEEKKNKNDDLKKDDIQY 353
+E+ V D+E + EN ++ + + D E +E +K+ DL+ D++
Sbjct: 3956 EEEMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDVSKDSDLEDMDMEA 4015
Query: 354 SVNKKEEKDNSHDKENQENFSGD 376
+ KEE D D+ Q+ +
Sbjct: 4016 ADENKEEADAEKDEPMQDEDPLE 4038
>gnl|CDD|146370 pfam03699, UPF0182, Uncharacterized protein family (UPF0182).
This family contains uncharacterized integral membrane
proteins.
Length = 771
Score = 29.1 bits (66), Expect = 1.9
Identities = 10/34 (29%), Positives = 18/34 (52%)
Query: 1 MLRRVLIGLGFLFSVVLVGAFTVPLFIDWTDFRE 34
+VLI L + ++L+ + L+ DW F+E
Sbjct: 1 RRSKVLIILAIVVLLLLLISLLADLYTDWLWFKE 34
>gnl|CDD|39860 KOG4661, KOG4661, KOG4661, Hsp27-ERE-TATA-binding protein/Scaffold
attachment factor (SAF-B) [Transcription].
Length = 940
Score = 28.6 bits (63), Expect = 3.0
Identities = 16/88 (18%), Positives = 32/88 (36%)
Query: 289 KLQSILPNSSTDEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKK 348
K+ IL + E K + S+ E+ + + E D F+ + + DL
Sbjct: 216 KILDILGETCKSEPVKEESSELEQPFAQDTSSVGPDRKLAEEEDLFDSAHPEEGDLDLAS 275
Query: 349 DDIQYSVNKKEEKDNSHDKENQENFSGD 376
+ ++ + K + + K GD
Sbjct: 276 ESTAHAQSSKADSLLAVVKREPAEQPGD 303
>gnl|CDD|37467 KOG2256, KOG2256, KOG2256, Predicted protein involved in nuclear
export of pre-ribosomes [Translation, ribosomal
structure and biogenesis].
Length = 661
Score = 28.4 bits (63), Expect = 3.1
Identities = 16/111 (14%), Positives = 40/111 (36%), Gaps = 13/111 (11%)
Query: 264 ELSAKKSRLSGNFKISDGNVRISRYKLQSILPNSSTDEDNKTKVSQDEENLLNFSENGAE 323
+ ++ G G + +L+ D + + ++++ LLNF E+
Sbjct: 46 TEREQDDKVDGKVTSKKGGASKHKKELEK---LKDKDPEFFKFLKEEDKELLNFKEDS-- 100
Query: 324 SMHDLNETDFFEEEEKKNKNDDLKKDDIQYSVNKKEEKDNSHDKENQENFS 374
+ D EE ++ D +D+ + +K+ K + + +
Sbjct: 101 ------DDDEDLEEPDEDLEDF-SEDEED-DEEDEIDKETDKKKNSGKVIT 143
>gnl|CDD|36161 KOG0943, KOG0943, KOG0943, Predicted ubiquitin-protein
ligase/hyperplastic discs protein, HECT superfamily
[Posttranslational modification, protein turnover,
chaperones].
Length = 3015
Score = 28.6 bits (63), Expect = 3.3
Identities = 24/112 (21%), Positives = 44/112 (39%), Gaps = 11/112 (9%)
Query: 266 SAKKSRLSGNFKISDGNVRISRYKLQSILPNSSTDEDNKTKVSQDEENLLNFSENGAESM 325
+ + G+ + D R +L S + T+ DN +E G E
Sbjct: 1683 IQESLPIRGDDEAQDDIPTPRRRRLLSGNTTNDTNADN------EEREGQEGEFAGEEDH 1736
Query: 326 HD-LNETDFFEEEEKKNKNDDLKKDDIQYSVNKKE----EKDNSHDKENQEN 372
HD N+ D ++ E ++ +DD DD ++ + E+D D+ Q+
Sbjct: 1737 HDDDNDDDDDDDAEAEDDDDDDDDDDEDMDLDAEAAAEDEEDEEGDEHEQDE 1788
>gnl|CDD|31311 COG1114, BrnQ, Branched-chain amino acid permeases [Amino acid
transport and metabolism].
Length = 431
Score = 28.2 bits (63), Expect = 3.8
Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 4/54 (7%)
Query: 214 NKAISLKIQLFPLAYPIIIDL----FGNLFWNEKQPIYSGVFSVAGDFSKLLNL 263
+ I + + + YPI I L F W + +Y V S L L
Sbjct: 333 EQIIKISVPVLTAIYPIAIALVLLSFARKLWKNSKRVYRLTLLVTLIISILDGL 386
>gnl|CDD|37623 KOG2412, KOG2412, KOG2412, Nuclear-export-signal (NES)-containing
protein/polyadenylated-RNA export factor [RNA processing
and modification].
Length = 591
Score = 28.1 bits (62), Expect = 4.2
Identities = 19/91 (20%), Positives = 31/91 (34%), Gaps = 4/91 (4%)
Query: 281 GNVRISRYKLQSILPNSSTDEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEEKK 340
+ LQS+ + K + Q E E E + +EE +
Sbjct: 183 RLLEEQNQVLQSLDTELQAIQREKQRKEQIRERK----ERSEEKREEAERKRRAHQEELR 238
Query: 341 NKNDDLKKDDIQYSVNKKEEKDNSHDKENQE 371
K D+ + Q + +EEK KE +E
Sbjct: 239 QKEDEEAELQEQEKIRAEEEKQEEERKEAEE 269
>gnl|CDD|114257 pfam05525, Branch_AA_trans, Branched-chain amino acid transport
protein. This family consists of several bacterial
branched-chain amino acid transport proteins which are
responsible for the transport of leucine, isoleucine and
valine via proton motive force.
Length = 428
Score = 28.0 bits (63), Expect = 5.2
Identities = 12/49 (24%), Positives = 18/49 (36%), Gaps = 4/49 (8%)
Query: 214 NKAISLKIQLFPLAYPIIIDL----FGNLFWNEKQPIYSGVFSVAGDFS 258
K IS+ + + L YPI I L + + +Y V S
Sbjct: 331 TKIISISVPVLVLIYPIAIVLIVLSLFRKLFPNSKVVYKLTILVTLIIS 379
>gnl|CDD|36356 KOG1141, KOG1141, KOG1141, Predicted histone methyl transferase
[Chromatin structure and dynamics].
Length = 1262
Score = 27.4 bits (60), Expect = 6.1
Identities = 21/109 (19%), Positives = 40/109 (36%), Gaps = 4/109 (3%)
Query: 265 LSAKKSRLSGNFKISDGNVRISRYK---LQSILPNSSTDEDNKTKVSQDEENLLNFSENG 321
L K+ SG D ++ S + + + + DE + Q +L
Sbjct: 1015 LQIFKTAQSGWGVREDTDIPQSTFICTYVGAPPTDDLADELRNAQADQYSNDLDLKDTVE 1074
Query: 322 AESMHDLNETDFFEEEEKKNKNDDLKKDDIQYSVNKKEEKDNSHDKENQ 370
E + +ETDF + + + DD Q + K E+ +S + +
Sbjct: 1075 LEESREDHETDFRGDTSDYDDEEGSDGDDGQ-DIMKMVERQDSSESGEE 1122
>gnl|CDD|143330 cd07706, IgV_TCR_delta, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) delta chain. IgV_TCR_delta:
immunoglobulin (Ig) variable (V) domain of the delta
chain of gamma/delta T-cell receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
heterodimers consisting of alpha and beta chains or
gamma and delta chains. Each chain contains a variable
(V) and a constant (C) region. The majority of T cells
contain alpha/beta TCRs but a small subset contain
gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
peptide fragments presented by major histocompatibility
complex (MHC) molecules. Gamma/delta TCRs recognize
intact protein antigens; they recognize protein antigens
directly and without antigen processing, and MHC
independently of the bound peptide. Gamma/delta T cells
can also be stimulated by non-peptide antigens such as
small phosphate- or amine-containing compounds. The
variable domain of gamma/delta TCRs is responsible for
antigen recognition and is located at the N-terminus of
the receptor.
Length = 116
Score = 27.5 bits (61), Expect = 7.4
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 238 LFWNEKQPIYSGVFSVAGDFSKLLNLELSAKKSRLSGNFKISD 280
+FW ++ P F + ++ +A K R S NF+ +
Sbjct: 32 IFWYKQLPSGEMTFLIRQK-----SIYGNATKGRYSVNFQKAQ 69
>gnl|CDD|34730 COG5129, MAK16, Nuclear protein with HMG-like acidic region
[General function prediction only].
Length = 303
Score = 27.4 bits (60), Expect = 7.7
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 5/64 (7%)
Query: 308 SQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDIQYSVNKKEEKDNSHDK 367
Q E + E +ES E+D E+E+ K K K DD + S + ++
Sbjct: 238 DQSMETSESEEEESSES-----ESDEDEDEDNKGKIRKRKTDDAKKSRKPHIHIEYEQER 292
Query: 368 ENQE 371
EN++
Sbjct: 293 ENEK 296
>gnl|CDD|35464 KOG0243, KOG0243, KOG0243, Kinesin-like protein [Cytoskeleton].
Length = 1041
Score = 27.3 bits (60), Expect = 7.7
Identities = 25/162 (15%), Positives = 51/162 (31%), Gaps = 29/162 (17%)
Query: 244 QPIYSGVFSVAGDFSKLLNLELSAKKSRLSGNFKIS--------DGNVRISRYKLQSILP 295
+ I S V ++L + + ++ + S + + LQ+I
Sbjct: 627 RDILSEVLESLQQLQEVLKKDSESCLEVINSSITSSINELESMLETIANTADDLLQNISS 686
Query: 296 NSSTDEDNKTKVSQDEENLLNFSENGAESM-------------HDLNETDFFEEEEKKN- 341
S ++ + + E L S++ A+ + T+ F E
Sbjct: 687 RLSNQQEILSLFANQELQELVLSQDSAQELSELTSTFFQTLDNQAEKLTNLFSEANISLS 746
Query: 342 -------KNDDLKKDDIQYSVNKKEEKDNSHDKENQENFSGD 376
K + +D + V +E +SHD+ N E
Sbjct: 747 QKLSSFQKKFESIAEDEKQLVEDIKELLSSHDQRNNELLDIA 788
>gnl|CDD|153331 cd07647, F-BAR_PSTPIP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Proteins. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Vetebrates contain two
Proline-Serine-Threonine Phosphatase-Interacting
Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are
mainly expressed in hematopoietic cells and are involved
in the regulation of cell adhesion and motility.
Mutations in PSTPIPs have been shown to cause
autoinflammatory disorders. PSTPIP1 contains an
N-terminal F-BAR domain, PEST motifs, and a C-terminal
SH3 domain, while PSTPIP2 contains only the N-terminal
F-BAR domain. F-BAR domains form banana-shaped dimers
with a positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 239
Score = 27.1 bits (60), Expect = 7.9
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 307 VSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDI--QYSVNKKEEKDNS 364
+ ++ EN+ N A+S+ + E + EE +K K + K +DI + NKKE +
Sbjct: 65 LRKETENVANAHIQLAQSLRE--EAEKLEEFREKQKEERKKTEDIMKRSQKNKKELYKKT 122
Query: 365 HD 366
Sbjct: 123 MK 124
>gnl|CDD|39635 KOG4434, KOG4434, KOG4434, Molecular chaperone SEC63, endoplasmic
reticulum translocon component [Intracellular
trafficking, secretion, and vesicular transport,
Posttranslational modification, protein turnover,
chaperones].
Length = 520
Score = 27.4 bits (60), Expect = 7.9
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 300 DEDNKTKVSQDEENLLNFSENGAESMHDLNETDFFEEEEKKNKNDDLKKDDIQYSVNKKE 359
+E+ K K S EE N ES ++D E++EK++ +DD + +++Q S+ K+
Sbjct: 331 EEEAKDKGSDSEEEETNRDSQDEESDASDRDSDR-EQDEKQDDDDDAEWEELQASIQKRA 389
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
0.318 0.137 0.387
Gapped
Lambda K H
0.267 0.0574 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,503,230
Number of extensions: 240966
Number of successful extensions: 744
Number of sequences better than 10.0: 1
Number of HSP's gapped: 739
Number of HSP's successfully gapped: 57
Length of query: 380
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 285
Effective length of database: 4,210,882
Effective search space: 1200101370
Effective search space used: 1200101370
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 (21.7 bits)
S2: 58 (26.5 bits)