RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780606|ref|YP_003065019.1| cell division protein
[Candidatus Liberibacter asiaticus str. psy62]
(744 letters)
>gnl|CDD|31860 COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related
proteins [Cell division and chromosome partitioning].
Length = 858
Score = 473 bits (1219), Expect = e-134
Identities = 204/457 (44%), Positives = 269/457 (58%), Gaps = 17/457 (3%)
Query: 290 LEKNAGSLETILEEFGIKGEIINVNPGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSL 349
L + L L I GP T +E G+K + L +D A ++ +
Sbjct: 406 LLVSIARLGRSLGIHLILATQKPDGVGPSNTRFEIALKVGVKVDSIEILGNDDAAALVAK 465
Query: 350 SAR-VAVIPKRNAIGIELPN-ETRETVYLRQIIESRSFSHSKANLALCLGKTISGESVIA 407
S R +A IP ++ IG + PN LR++++ F + L K I E ++
Sbjct: 466 SRRYLAPIPGKSYIGFQSPNSGRPWLPPLRELLDLDEFLERFPLGVIDLPKDIRQEPIVI 525
Query: 408 DLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLL 467
DLA H+L+AG TGSGKSVA+NTMI+SLLY P+E R ++DPKMLEL+ YDG+PHL
Sbjct: 526 DLAKAGHLLIAGATGSGKSVALNTMILSLLYTHSPEEVRFYIIDPKMLELAAYDGLPHLG 585
Query: 468 TPVVTNPK-KAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMR 526
PVVT+ K KA AL V EME RY+ S VRNI+ YNE+I+ ++
Sbjct: 586 DPVVTDEKEKAEKALAELVAEMERRYKLFSEKGVRNIEGYNEKIAGAIPDE--------- 636
Query: 527 PMPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDVITGTIKAN 586
+PYIVII+DE ADLMMVAGKE+E I RLAQ RAAGIHLI+ATQRPSVDVITG IKAN
Sbjct: 637 ELPYIVIIIDEYADLMMVAGKELEELIARLAQKGRAAGIHLILATQRPSVDVITG-IKAN 695
Query: 587 FPIRISFQVTSKIDSRTILGEHGAEQLLGRGDMLYM-SGGGRIQRVHGPLVSDIEIEKVV 645
P RI+ +++SKIDSR ILG+ GAE+LLGRGDML++ G + RV VSD E+E+VV
Sbjct: 696 IPTRIALRLSSKIDSRLILGQDGAEKLLGRGDMLFLGPGDAKPVRVLPAFVSDEEVEEVV 755
Query: 646 QHLKKQGCPEYLNTVTTDTDTDKDGNNFD---SEEKKERSNLYAKAVDLVIDNQRCSTSF 702
+HLK Q P YL+ T E++ L+ +A +LV+ + STS
Sbjct: 756 EHLKSQVEPVYLDLATNPHLLISGETTVLRAIDREEEAMDELFDEAKELVLPPPKASTSL 815
Query: 703 IQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHVF 739
+QR L +G NRAA L+E ME G+V + R +
Sbjct: 816 LQRALDLGLNRAATLIESMELLGIVGPPNGPKGREIL 852
Score = 56.8 bits (136), Expect = 2e-08
Identities = 59/251 (23%), Positives = 96/251 (38%), Gaps = 30/251 (11%)
Query: 366 LPNETRETVYLRQIIESRSFSHSKANLALCL-GKTISGESVIADLANMPHILVAGTTGSG 424
L I +S + L + + PH LVAGTTGSG
Sbjct: 239 LARLRHTQTSENSIPGREDYSRLGVPIGLRGKKGELLNLDLHEKAEGGPHGLVAGTTGSG 298
Query: 425 KSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTNPKKAVMALKWA 484
KS + T I+SL P+E +++D K ++ H++ + ++ +A
Sbjct: 299 KSE-LLTYILSLAINHSPEELNFLLIDYKGGSMANPFKGLHVVAVITNLAEERALAAIKG 357
Query: 485 VREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMV 544
+R ++ G D P+P++ +I DE A+L
Sbjct: 358 ELARRQRNHINAYTKSYKR------------------GKDTPPLPHLFLIADEFAELK-S 398
Query: 545 AGKEIEGAIQRLAQMARAAGIHLIMATQRP--SVDVITGTIKANFPIRISFQVTSKIDSR 602
+ + +A++ R+ GIHLI+ATQ+P T I+ +V K+DS
Sbjct: 399 EHPDFAELLVSIARLGRSLGIHLILATQKPDGVGPSNTR-------FEIALKVGVKVDSI 451
Query: 603 TILGEHGAEQL 613
ILG A L
Sbjct: 452 EILGNDDAAAL 462
>gnl|CDD|144975 pfam01580, FtsK_SpoIIIE, FtsK/SpoIIIE family. FtsK has extensive
sequence similarity to wide variety of proteins from
prokaryotes and plasmids, termed the FtsK/SpoIIIE
family. This domain contains a putative ATP binding
P-loop motif. It is found in the FtsK cell division
protein from E. coli and the stage III sporulation
protein E SpoIIIE which has roles in regulation of
prespore specific gene expression in B. subtilis. A
mutation in FtsK causes a temperature sensitive block in
cell division and it is involved in peptidoglycan
synthesis or modification. The SpoIIIE protein is
implicated in intercellular chromosomal DNA transfer.
Length = 202
Score = 231 bits (590), Expect = 7e-61
Identities = 97/206 (47%), Positives = 138/206 (66%), Gaps = 8/206 (3%)
Query: 375 YLRQIIESRSFSHSKANLALCLGKTISGESVIADLANMPHILVAGTTGSGKSVAINTMIM 434
L+++++ + F S++ L + LGK ISG V+ADL MPH+L+AG TGSGKS +NT+I+
Sbjct: 1 ELKELLDGKPFRGSRSRLTIALGKDISGNPVVADLVKMPHLLIAGATGSGKSTFLNTLIL 60
Query: 435 SLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTNPKKAVMALKWAVREMEERYRK 494
SL R P+E R+ ++DPK EL+ + +PHLL+ V T+P+ A+ AL+ V EME RY
Sbjct: 61 SLAARHSPEEVRLYLIDPKGGELAALEDLPHLLSAVATDPEDALSALRALVAEMERRYAL 120
Query: 495 MSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMVAGKE----IE 550
+ L VR+I+ YN I E G + +P IV+IVDE A+LM+ A K+ +E
Sbjct: 121 LKQLGVRSIEEYNGEI----AEDILGGAGWLEELPPIVVIVDERAELMLAAPKDSEMRVE 176
Query: 551 GAIQRLAQMARAAGIHLIMATQRPSV 576
GA+ RLA+M RAAGIHL++ATQRP V
Sbjct: 177 GALARLARMGRAAGIHLLLATQRPGV 202
>gnl|CDD|29993 cd01127, TrwB, Bacterial conjugation protein TrwB, ATP binding
domain. TrwB is a homohexamer encoded by conjugative
plasmids in Gram-negative bacteria. TrwB also has an all
alpha domain which has been hypothesized to be
responsible for DNA binding. TrwB is a component of Type
IV secretion and is responsible for the horizontal
transfer of DNA between bacteria..
Length = 410
Score = 40.3 bits (94), Expect = 0.002
Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDP 452
TI+G D H ++ GTTG+GK+ I ++ S+ R R D R I+ DP
Sbjct: 30 TIAGLPFPKDAEEA-HTMIIGTTGTGKTTQIRELLASI--RARGD--RAIIYDP 78
>gnl|CDD|29995 cd01129, PulE-GspE, PulE/GspE The type II secretory pathway is the
main terminal branch of the general secretory pathway
(GSP). It is responsible for the export the majority of
Gram-negative bacterial exoenzymes and toxins. PulE is a
cytoplasmic protein of the GSP, which contains an ATP
binding site and a tetracysteine motif. This subgroup
also includes PillB and HofB..
Length = 264
Score = 37.9 bits (88), Expect = 0.011
Identities = 28/101 (27%), Positives = 41/101 (40%), Gaps = 10/101 (9%)
Query: 341 DIARSMSSLSARVAVIPKRNAIGIE---LPNETRETVYLRQIIESRSFSHSKANLALCLG 397
DIA R+ + K I + LP E+V LR I++ ++ LG
Sbjct: 9 DIAERRKPQDGRIRLKLKGREIDLRVSTLPTIYGESVVLR-ILDKKNQILDLE----KLG 63
Query: 398 KTISGESVIADLANMPH--ILVAGTTGSGKSVAINTMIMSL 436
+ L PH ILV G TGSGK+ + + + L
Sbjct: 64 LKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL 104
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases..
Length = 151
Score = 36.0 bits (83), Expect = 0.037
Identities = 28/191 (14%), Positives = 57/191 (29%), Gaps = 55/191 (28%)
Query: 406 IADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD-PKMLELSVYDGIP 464
+L ++L+ G G+GK+ T+ ++ L + ++ +LE V +
Sbjct: 13 ALELPPPKNLLLYGPPGTGKT----TLARAIANELFRPGAPFLYLNASDLLEGLVVAEL- 67
Query: 465 HLLTPVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDD 524
+ R+ EK +
Sbjct: 68 --------------------------------------FGHFLVRLLFELAEKAKPG--- 86
Query: 525 MRPMPYIVIIVDEMADLMMVAGKEIEGAIQRLAQM-ARAAGIHLIMATQRPSVDVITGTI 583
V+ +DE+ L A + ++ L + + +I AT RP + + +
Sbjct: 87 -------VLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRAL 139
Query: 584 KANFPIRISFQ 594
IRI
Sbjct: 140 YDRLDIRIVIP 150
>gnl|CDD|33254 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 36.1 bits (83), Expect = 0.041
Identities = 15/63 (23%), Positives = 29/63 (46%), Gaps = 6/63 (9%)
Query: 393 ALCLGKTISGESVIADL---ANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIM 449
L + KT G + ++ H L+ G TG+GK+V ++ ++ L P +++
Sbjct: 414 PLTVLKTEDGSPFYFNFHVGEDVGHTLIIGPTGAGKTVLLSFLLAQALKYGNP---QIVA 470
Query: 450 VDP 452
D
Sbjct: 471 FDK 473
>gnl|CDD|145224 pfam01935, DUF87, Domain of unknown function DUF87. The function
of this prokaryotic domain is unknown. It contains
several conserved aspartates and histidines that could
be metal ligands.
Length = 218
Score = 35.4 bits (82), Expect = 0.065
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 394 LCLGKTISGESVIA--DLANM--PHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIM 449
+ +G+ + G V DL + H + G+TGSGKS + ++ LL + +++
Sbjct: 1 IEIGRLLDGSEVPVYLDLNKLVSRHFAILGSTGSGKSNTVAVLLEELLEKKG---ATVLI 57
Query: 450 VDP 452
DP
Sbjct: 58 FDP 60
>gnl|CDD|36209 KOG0991, KOG0991, KOG0991, Replication factor C, subunit RFC2
[Replication, recombination and repair].
Length = 333
Score = 34.9 bits (80), Expect = 0.079
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLL 437
T+ SVIA NMP+++++G G+GK+ +I + LL
Sbjct: 35 TVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL 73
>gnl|CDD|32635 COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus
assembly pathway, ATPase PilB [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 500
Score = 34.6 bits (79), Expect = 0.11
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 406 IADLANMPH--ILVAGTTGSGKSVAINTMIMSL 436
+ L N P ILV G TGSGK+ + + L
Sbjct: 250 LLRLLNRPQGLILVTGPTGSGKTTTLYAALSEL 282
>gnl|CDD|30782 COG0433, COG0433, Predicted ATPase [General function prediction
only].
Length = 520
Score = 33.8 bits (76), Expect = 0.16
Identities = 33/154 (21%), Positives = 47/154 (30%), Gaps = 17/154 (11%)
Query: 325 EPAPGIKSSRVIGLADDIARSMSSLSARVAVIPKRNAIGI--------ELPNETRETVYL 376
+ I + L I S+ L I KR +G P VY
Sbjct: 67 DRITSIDLEALADLEAFIISSVLDLEGSYVGIAKRRVLGELEPELLPPRSPVRPGSPVYR 126
Query: 377 -RQIIESRSFSHSKANLALCLGKTISGESVIADL-----ANMPHILVAGTTGSGKSVAIN 430
+ + L LG + G V L HI + G+TGSGKS N
Sbjct: 127 ASDEVLEKILGFDVDGRGLLLGALLDGGEVPVYLDLNKLVLARHIAILGSTGSGKS---N 183
Query: 431 TMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIP 464
+ L L D +++ DP +
Sbjct: 184 LAKVLLEELLGKDGATVVIFDPHGEYDLLRLDRA 217
Score = 30.3 bits (67), Expect = 1.7
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 11/77 (14%)
Query: 529 PYIVIIVDEMADLMMVAGKE-IEGAIQRLAQMARAAGIHLIMATQRPSVDVITGTIKANF 587
++I+++E + + K ++ I+R+A+ R G+ L++ATQRPS +
Sbjct: 391 GPLLIVIEEAHNFAPSSRKAPVKDIIERIAREGRKFGVGLVLATQRPS----------DL 440
Query: 588 PIRISFQVTSKIDSRTI 604
+ Q +KI R +
Sbjct: 441 DDLVLSQANTKIILRLV 457
>gnl|CDD|36372 KOG1157, KOG1157, KOG1157, Predicted guanosine polyphosphate
pyrophosphohydrolase/synthase [Signal transduction
mechanisms].
Length = 543
Score = 33.1 bits (75), Expect = 0.27
Identities = 24/112 (21%), Positives = 43/112 (38%), Gaps = 11/112 (9%)
Query: 204 DLAPHMSTEYLHNKKIRTDSTPTTAGDQQKKSSIDHKPSSSNTMTEHM----FQDTSQEI 259
++ + E L K P A D ++++ + HK SS + + + Q
Sbjct: 35 EMDSVLVDEALGFKMEVELVGPY-ARDLERRAQLWHKTFSSELVIKALYEAAKAHRGQMR 93
Query: 260 AKGQKQYEQPCS------SFLQVQSNVNLQGITHEILEKNAGSLETILEEFG 305
A + Y C + + S V + I H++++ S E IL FG
Sbjct: 94 ADDDRPYLNHCIETAMILADIGADSTVVVAAILHDVVDDTFMSYEEILRHFG 145
>gnl|CDD|73322 cd02755, MopB_Thiosulfate-R-like, The MopB_Thiosulfate-R-like CD
contains thiosulfate-, sulfur-, and
polysulfide-reductases, and other related proteins.
Thiosulfate reductase catalyzes the cleavage of
sulfur-sulfur bonds in thiosulfate. Polysulfide
reductase is a membrane-bound enzyme that catalyzes the
reduction of polysulfide using either hydrogen or
formate as the electron donor. Members of the
MopB_Thiosulfate-R-like CD belong to the
molybdopterin_binding (MopB) superfamily of proteins..
Length = 454
Score = 32.9 bits (75), Expect = 0.29
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 402 GESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELS 458
G V D N +I++ G + AI + L + + ++++VDP+ EL+
Sbjct: 147 GGEVNPDFENARYIILFGRNLAE---AIIVVDARRLMKALENGAKVVVVDPRFSELA 200
>gnl|CDD|112562 pfam03753, HHV6-IE, Human herpesvirus 6 immediate early protein.
The proteins in this family are poorly characterized,
but an investigation has indicated that the immediate
early protein is required the down-regulation of MHC
class I expression in dendritic cells. Human herpesvirus
6 immediate early protein is also referred to as U90.
Length = 993
Score = 33.1 bits (75), Expect = 0.30
Identities = 22/113 (19%), Positives = 40/113 (35%), Gaps = 2/113 (1%)
Query: 130 ETIEPSLDVIEEVNTDTASNVSD-QINQNPDTLSWLSDFAFFEGLSTPHSFLSFNDHHQY 188
E IE D + + ++ + I N + S + D STP F+DH +Y
Sbjct: 294 EQIEKLYDDTGLIKPLNSISIMEGYITGNKNRSSSICDSNLDPSDSTPLELEDFDDHGKY 353
Query: 189 T-PIPIQSAEDLSDHTDLAPHMSTEYLHNKKIRTDSTPTTAGDQQKKSSIDHK 240
+ I+S + D+ ++ + N + T ID +
Sbjct: 354 SEESSIESIHEDDDNLAVSQASDESHSKNTTGKNPEVCTREYKLDFFEEIDTQ 406
>gnl|CDD|146673 pfam04157, EAP30, EAP30/Vps36 family. This family includes EAP30
as well as the Vps36 protein. Vps36 is involved in Golgi
to endosome trafficking. EAP30 is a subunit of the ELL
complex. The ELL is an 80-kDa RNA polymerase II
transcription factor. ELL interacts with three other
proteins to form the complex known as ELL complex. The
ELL complex is capable of increasing that catalytic rate
of transcription elongation, but is unable to repress
initiation of transcription by RNA polymerase II as is
the case of ELL. EAP30 is thought to lead to the
derepression of ELL's transcriptional inhibitory
activity.
Length = 219
Score = 32.6 bits (75), Expect = 0.40
Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 8/94 (8%)
Query: 635 LVSDIEIEKVVQHLKKQGCPEYLNTVTTDTDTDKDGNNF-DSEEKKERSNLYAKAVDLVI 693
LVS ++ K + L+K G L V G S E S K ++L
Sbjct: 130 LVSPDDLLKACKKLEKLGLGFKLVKV-------GSGVLVVQSVPDSELSTDQTKILELAE 182
Query: 694 DNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLV 727
+ + S + +L RA ++E+ E+EGL+
Sbjct: 183 ELGGVTASELAEKLGWSIGRAKEVLEKAEKEGLL 216
>gnl|CDD|35548 KOG0327, KOG0327, KOG0327, Translation initiation factor 4F,
helicase subunit (eIF-4A) and related helicases
[Translation, ribosomal structure and biogenesis].
Length = 397
Score = 32.2 bits (73), Expect = 0.54
Identities = 33/141 (23%), Positives = 46/141 (32%), Gaps = 12/141 (8%)
Query: 327 APGIKSSRVIGLADDIARSM--SSLSARVAVIPKRNAIGIELPNETRETVYLRQIIESRS 384
P IK VI A +S + + TRE Q +
Sbjct: 58 LPCIKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRAL 117
Query: 385 FSHSKANLALCLGKTISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDE 444
H ++ C+G T A L + PHI+V GT G M L D
Sbjct: 118 GDHMDVSVHACIGGTNVRREDQALLKDKPHIVV-GTPG-------RVFDMLNRGSLSTDG 169
Query: 445 CRMIMVDP--KMLELSVYDGI 463
+M ++D +ML D I
Sbjct: 170 IKMFVLDEADEMLSRGFKDQI 190
>gnl|CDD|32636 COG2805, PilT, Tfp pilus assembly protein, pilus retraction ATPase
PilT [Cell motility and secretion / Intracellular
trafficking and secretion].
Length = 353
Score = 32.1 bits (73), Expect = 0.60
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 405 VIADLANMPH--ILVAGTTGSGKSVAINTMI 433
++ +LA P ILV G TGSGKS + MI
Sbjct: 116 IVRELAESPRGLILVTGPTGSGKSTTLAAMI 146
>gnl|CDD|109493 pfam00437, GSPII_E, Type II/IV secretion system protein. This
family contains both type II and type IV pathway
secretion proteins from bacteria. VirB11 ATPase is a
subunit of the Agrobacterium tumefaciens transfer DNA
(T-DNA) transfer system, a type IV secretion pathway
required for delivery of T-DNA and effector proteins to
plant cells during infection.
Length = 283
Score = 31.9 bits (73), Expect = 0.66
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMV-DPKMLELS 458
ILV+G TGSGK+ + LL + D+ R++ + DP ++L
Sbjct: 142 ILVSGGTGSGKTTLLYA----LLNEINTDDERIVTIEDPVEIQLE 182
>gnl|CDD|113806 pfam05049, IIGP, Interferon-inducible GTPase (IIGP).
Interferon-inducible GTPase (IIGP) is thought to play a
role in in intracellular defence. IIGP is predominantly
associated with the Golgi apparatus and also localizes
to the endoplasmic reticulum and exerts a distinct role
in IFN-induced intracellular membrane trafficking or
processing.
Length = 375
Score = 31.3 bits (71), Expect = 0.87
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 396 LGKTISG-ESVIADLANMP-HILVAGTTGSGKSVAINTM 432
L K +S + I ++++ P I V G +G+GKS IN +
Sbjct: 17 LQKVVSIIKKAIQEISSAPLKIAVTGDSGNGKSSFINAL 55
>gnl|CDD|30975 COG0630, VirB11, Type IV secretory pathway, VirB11 components, and
related ATPases involved in archaeal flagella
biosynthesis [Cell motility and secretion /
Intracellular trafficking and secretion].
Length = 312
Score = 30.7 bits (69), Expect = 1.3
Identities = 31/154 (20%), Positives = 55/154 (35%), Gaps = 18/154 (11%)
Query: 295 GSLETILEEFGIKGEIINVN-PGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSLSARV 353
G LE +L + I E I VN PGPV ++ + ++ +++ L+ R
Sbjct: 16 GKLEPLLRDPRI--EDIVVNGPGPVYVEHKGGGS--YVTNIPFLTEEELDSLAIRLAQRS 71
Query: 354 A--VIPKRNAIGIELPNETRETVYLRQIIES-------RSFSHSKANLALCLGKTISGES 404
+ + LP+ +R + L + R FS +
Sbjct: 72 GKPISEANPILDATLPDGSRIQIVLGPEVSPNGSSFTIRKFSDEPITPEDLIEYGTISPE 131
Query: 405 VIADLA----NMPHILVAGTTGSGKSVAINTMIM 434
A L I++ G T SGK+ +N ++
Sbjct: 132 QAAYLWLAIEARKSIIICGGTASGKTTLLNALLD 165
>gnl|CDD|145645 pfam02606, LpxK, Tetraacyldisaccharide-1-P 4'-kinase. This family
consists of tetraacyldisaccharide-1-P 4'-kinase also
known as Lipid-A 4'-kinase or Lipid A biosynthesis
protein LpxK, EC:2.7.1.130. This enzyme catalyses the
reaction: ATP + 2,3-bis(3-hydroxytetradecanoyl)-D
-glucosaminyl-(beta-D-1,6)-2,
3-bis(3-hydroxytetradecanoyl)-D-glu cosam inyl
beta-phosphate <=> ADP +
2,3,2',3'-tetrakis(3-hydroxytetradecanoyl)-D-
glucosaminyl-1,6-beta-D-glucosamine 1,4'-bisphosphate.
This enzyme is involved in the synthesis of lipid A
portion of the bacterial lipopolysaccharide layer (LPS).
The family contains a P-loop motif at the N terminus.
Length = 318
Score = 31.0 bits (71), Expect = 1.4
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 4/41 (9%)
Query: 169 FFEGLS----TPHSFLSFNDHHQYTPIPIQSAEDLSDHTDL 205
FF+ L + L+F DHH +T + E + L
Sbjct: 236 FFDTLRALGLEVVATLAFPDHHPFTAADLAFLEAEAKEPGL 276
>gnl|CDD|133259 cd01850, CDC_Septin, CDC/Septin. Septins are a conserved family of
GTP-binding proteins associated with diverse processes
in dividing and non-dividing cells. They were first
discovered in the budding yeast S. cerevisiae as a set
of genes (CDC3, CDC10, CDC11 and CDC12) required for
normal bud morphology. Septins are also present in
metazoan cells, where they are required for cytokinesis
in some systems, and implicated in a variety of other
processes involving organization of the cell cortex and
exocytosis. In humans, 12 septin genes generate dozens
of polypeptides, many of which comprise heterooligomeric
complexes. Since septin mutants are commonly defective
in cytokinesis and formation of the neck formation of
the neck filaments/septin rings, septins have been
considered to be the primary constituents of the neck
filaments. Septins belong to the GTPase superfamily for
their conserved GTPase motifs and enzymatic activities.
Length = 276
Score = 30.6 bits (70), Expect = 1.5
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDE 444
I+V G +G GKS INT+ + L
Sbjct: 7 IMVVGESGLGKSTFINTLFNTKLIPSDYPP 36
>gnl|CDD|35566 KOG0345, KOG0345, KOG0345, ATP-dependent RNA helicase [RNA
processing and modification].
Length = 567
Score = 30.7 bits (69), Expect = 1.7
Identities = 42/201 (20%), Positives = 79/201 (39%), Gaps = 18/201 (8%)
Query: 404 SVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYR----LRPDECRMIMVDPKMLELSV 459
+ I L ++V TGSGK++A ++ ++YR P + +++ P EL+
Sbjct: 35 ATIPLLLKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTR-ELAR 93
Query: 460 YDGIPHLLTPVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQ 519
I + P + + L R +EE + + R+ + + +
Sbjct: 94 Q--IREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAE 151
Query: 520 GCGDDMRPMPYIVIIVDEMADLMMVAG--KEIEGAIQRLAQMARAAGIHLIMATQRPSVD 577
R + +V+ DE AD ++ G + + L + R L ATQ V+
Sbjct: 152 KL--SFRSLEILVL--DE-ADRLLDMGFEASVNTILSFLPKQRRTG---LFSATQTQEVE 203
Query: 578 VITGTIKANFPIRISFQVTSK 598
+ N P+R+S + SK
Sbjct: 204 DLARAGLRN-PVRVSVKEKSK 223
>gnl|CDD|48072 cd01968, Nitrogenase_NifE_I, Nitrogenase_NifE_I: a subgroup of the
NifE subunit of the NifEN complex: NifE forms an
alpha2beta2 tetramer with NifN. NifE and NifN are
structurally homologous to nitrogenase MoFe protein
alpha and beta subunits respectively. NifEN
participates in the synthesis of the iron-molybdenum
cofactor (FeMoco) of the MoFe protein. NifB-co (an iron
and sulfur containing precursor of the FeMoco) from NifB
is transferred to the NifEN complex where it is further
processed to FeMoco. The NifEN bound precursor of FeMoco
has been identified as a molybdenum-free, iron- and
sulfur- containing analog of FeMoco. It has been
suggested that this NifEN bound precursor also acts as a
cofactor precursor in nitrogenase systems which require
a cofactor other than FeMoco: i.e. iron-vanadium
cofactor (FeVco) or iron only cofactor (FeFeco)..
Length = 410
Score = 30.2 bits (68), Expect = 2.2
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 508 ERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMVAGKEIEGAIQR 555
ERI + GE DD P ++ ++ ADL++ GKE A++
Sbjct: 327 ERIKELLGEG-TVIVDDANPRELKKLLKEKKADLLVAGGKERYLALKL 373
>gnl|CDD|34569 COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF
[Intracellular trafficking and secretion].
Length = 355
Score = 29.9 bits (67), Expect = 2.6
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 15/84 (17%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPH---LLT--P 469
IL++G TGSGK+ T++ +L + DE + + D L+L PH L T P
Sbjct: 176 ILISGGTGSGKT----TLLNALSGFIDSDERVITIEDTAELQL----AHPHVVRLETRPP 227
Query: 470 VVTNPKKAVMA--LKWAVREMEER 491
V + M +K A+R +R
Sbjct: 228 NVEGTGEVTMRDLVKNALRMRPDR 251
>gnl|CDD|35954 KOG0735, KOG0735, KOG0735, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 952
Score = 30.0 bits (67), Expect = 2.7
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 413 PHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVT 472
+IL+ G GSGK+ + + Y + + +V L+ S + I L V +
Sbjct: 432 GNILLNGPKGSGKTNLVKALFD---YYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFS 488
>gnl|CDD|31846 COG1660, COG1660, Predicted P-loop-containing kinase [General
function prediction only].
Length = 286
Score = 29.8 bits (67), Expect = 2.7
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 412 MPHILVAGTTGSGKSVAINTM 432
M ++V G +G+GKSVA+ +
Sbjct: 1 MRLVIVTGLSGAGKSVALRVL 21
>gnl|CDD|58523 cd04501, SGNH_hydrolase_like_4, Members of the SGNH-hydrolase
superfamily, a diverse family of lipases and esterases.
The tertiary fold of the enzyme is substantially
different from that of the alpha/beta hydrolase family
and unique among all known hydrolases; its active site
closely resembles the Ser-His-Asp(Glu) triad from other
serine hydrolases, but may lack the carboxlic acid..
Length = 183
Score = 29.5 bits (66), Expect = 3.8
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 523 DDMRPMPYIVIIVDEMADLMM-VAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDVITG 581
D + P +VII+ D+++ + + I+ I+ + ++A A GI +I+A+ P D
Sbjct: 54 DVIALKPAVVIIMGGTNDIIVNTSLEMIKDNIRSMVELAEANGIKVILASPLPVDDYPWK 113
Query: 582 TIKANFPIRIS 592
++
Sbjct: 114 PQWLRPANKLK 124
>gnl|CDD|37246 KOG2035, KOG2035, KOG2035, Replication factor C, subunit RFC3
[Energy production and conversion, Replication,
recombination and repair].
Length = 351
Score = 29.5 bits (66), Expect = 3.9
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 13/73 (17%)
Query: 406 IADLANMPHILVAGTTGSGKSVAINTMIMSLL--------YRLRPDECRMIMVDPKMLEL 457
++ + PH+LV G +G+GK T IM LL +L+ + K LE+
Sbjct: 28 LSSTGDFPHLLVYGPSGAGK----KTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEI 83
Query: 458 SVYDGIPHL-LTP 469
S HL +TP
Sbjct: 84 STVSSNYHLEITP 96
>gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 29.2 bits (65), Expect = 4.4
Identities = 49/263 (18%), Positives = 89/263 (33%), Gaps = 64/263 (24%)
Query: 409 LANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLT 468
+ +++ G TGSGK+ + ++ ++ P+ L
Sbjct: 62 IEQNQVVIIVGETGSGKTTQLPQFLLEEGLG---IAGKIGCTQPRRLA------------ 106
Query: 469 PVVTNPKKAVMALKWAVREMEERYRKMSHLSVR--NIKSYNERISTMY-GEKPQGCGDDM 525
A + E+ E+ + S+R + S RI M G + +D
Sbjct: 107 --------ARSVAERVAEELGEKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDP 158
Query: 526 RPMPYIVIIVDE------MADLMMVAGKEIEGAIQRLAQMARAAGIHLIM-ATQ------ 572
Y V+I+DE D+++ G ++ L R +IM AT
Sbjct: 159 LLSGYSVVIIDEAHERSLNTDILL-------GLLKDLLARRRDDLKLIIMSATLDAERFS 211
Query: 573 --RPSVDVITGTIKANFPIRISFQVTSKIDS------RTILGEHGAEQLLGRGDML-YMS 623
+ VI + +P+ I + ++ D + H E G G +L ++
Sbjct: 212 AYFGNAPVIEIEGRT-YPVEIRYLPEAEADYILLDAIVAAVDIHLRE---GSGSILVFLP 267
Query: 624 GGGRIQRVHG-----PLVSDIEI 641
G I+R L D+EI
Sbjct: 268 GQREIERTAEWLEKAELGDDLEI 290
>gnl|CDD|29996 cd01130, VirB11-like_ATPase, Type IV secretory pathway component
VirB11, and related ATPases. The homohexamer, VirB11 is
one of eleven Vir proteins, which are required for
T-pilus biogenesis and virulence in the transfer of
T-DNA from the Ti (tumor-inducing) plasmid of bacterial
to plant cells. The pilus is a fibrous cell surface
organelle, which mediates adhesion between bacteria
during conjugative transfer or between bacteria and host
eukaryotic cells during infection. VirB11- related
ATPases include the archaeal flagella biosynthesis
protein and the pilus assembly proteins CpaF/TadA and
TrbB. This alignment contains the C-terminal domain,
which is the ATPase..
Length = 186
Score = 29.1 bits (65), Expect = 4.6
Identities = 16/37 (43%), Positives = 26/37 (70%), Gaps = 5/37 (13%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
IL++G TGSGK+ T++ +LL + PDE R+I ++
Sbjct: 28 ILISGGTGSGKT----TLLNALLAFIPPDE-RIITIE 59
>gnl|CDD|144365 pfam00735, Septin, Septin. Members of this family include CDC3,
CDC10, CDC11 and CDC12/Septin. Members of this family
bind GTP. As regards the septins, these are polypeptides
of 30-65kDa with three characteristic GTPase motifs
(G-1, G-3 and G-4) that are similar to those of the Ras
family. The G-4 motif is strictly conserved with a
unique septin consensus of AKAD. Most septins are
thought to have at least one coiled-coil region, which
in some cases is necessary for intermolecular
interactions that allow septins to polymerize to form
rod-shaped complexes. In turn, these are arranged into
tandem arrays to form filaments. They are
multifunctional proteins, with roles in cytokinesis,
sporulation, germ cell development, exocytosis and
apoptosis.
Length = 280
Score = 29.2 bits (66), Expect = 4.7
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLR 441
++V G +G GK+ INT+ ++ LY R
Sbjct: 7 LMVVGESGLGKTTLINTLFLTDLYPER 33
>gnl|CDD|32537 COG2401, COG2401, ABC-type ATPase fused to a predicted
acetyltransferase domain [General function prediction
only].
Length = 593
Score = 28.8 bits (64), Expect = 5.1
Identities = 42/180 (23%), Positives = 69/180 (38%), Gaps = 39/180 (21%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVT-- 472
+ V G +G+GK+ + MI+ ++ R ++ + +V IP P
Sbjct: 412 VAVVGQSGAGKTTLLR-MILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEV 470
Query: 473 -----------NPKKAVMALKWAVREMEERYR-KMSHLSVRNIKSYNERISTMYGEKPQG 520
+ AV L A YR K S LS + +++ + E+P
Sbjct: 471 TILEHLRSKTGDLNAAVEILNRAGLSDAVLYRRKFSELSTG--QKERAKLAKLLAERPN- 527
Query: 521 CGDDMRPMPYIVIIVDEMADLMMVAGKEIEGAIQRLA----QMARAAGIHLIMATQRPSV 576
V+++DE A + E R+A ++AR AGI LI+ T RP V
Sbjct: 528 -----------VLLIDEFAAHLD------ELTAVRVARKISELAREAGITLIVVTHRPEV 570
>gnl|CDD|37142 KOG1931, KOG1931, KOG1931, Putative transmembrane protein [General
function prediction only].
Length = 1156
Score = 28.8 bits (64), Expect = 5.3
Identities = 20/126 (15%), Positives = 39/126 (30%), Gaps = 29/126 (23%)
Query: 8 NLHWLET---PHKQVDLKSFVPPWHEAFLLA-----------PNVRFTRTPENDLNRYRN 53
N+ W + K + L P+ E L P + D+++Y+
Sbjct: 36 NIEWRRSYGRVPKVIRLPIEFIPFGEEELDQDKSGDKSLLEFPFLHILIVECIDIDQYKA 95
Query: 54 N----STLQQPKETEHSIGDYLHTKAVTESLKSTSSLVYLKNRFMMNRNSVADQ----FN 105
T +S D++ + +S S + SV D+ F
Sbjct: 96 TVRPLVTKWLKNLESNSSSDWMIVIVEYAAKRSNDS-------NLFPVKSVMDKIRKDFP 148
Query: 106 SQKTPH 111
+++T
Sbjct: 149 TKQTDR 154
>gnl|CDD|29997 cd01131, PilT, Pilus retraction ATPase PilT. PilT is a nucleotide
binding protein responsible for the retraction of type
IV pili, likely by pili disassembly. This retraction
provides the force required for travel of bacteria in
low water environments by a mechanism known as twitching
motility..
Length = 198
Score = 29.0 bits (65), Expect = 5.3
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 415 ILVAGTTGSGKSVAINTMI 433
+LV G TGSGKS + MI
Sbjct: 4 VLVTGPTGSGKSTTLAAMI 22
>gnl|CDD|146942 pfam04548, AIG1, AIG1 family. Arabidopsis protein AIG1 appears to
be involved in plant resistance to bacteria.
Length = 200
Score = 28.7 bits (65), Expect = 6.2
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 17/62 (27%)
Query: 415 ILVAGTTGSGKSVAINTMI----------------MSLLYRLRPDECRMIMVD-PKMLEL 457
I++ G TG+GKS N+++ L D + ++D P + +L
Sbjct: 3 IVLVGKTGNGKSATGNSILGRKAFESKLRAQGVTKTCQLVSRTWDGRIINVIDTPGLFDL 62
Query: 458 SV 459
SV
Sbjct: 63 SV 64
>gnl|CDD|35422 KOG0201, KOG0201, KOG0201, Serine/threonine protein kinase [Signal
transduction mechanisms].
Length = 467
Score = 28.1 bits (62), Expect = 8.6
Identities = 17/91 (18%), Positives = 32/91 (35%), Gaps = 6/91 (6%)
Query: 231 QQKKSSIDHKPSSSNTMTEHMFQDTSQEIAKGQKQYEQPCSSFLQVQSNVNLQGITHEIL 290
Q+ S +PSS T + F ++ + + +Y QP S+ + + ++
Sbjct: 346 QRTSSPSGSQPSSGTTASGSGFNKSTSL--QNESEYAQPDSACPSPIPSPVFGLLNCKLS 403
Query: 291 EK----NAGSLETILEEFGIKGEIINVNPGP 317
+AGS + N PG
Sbjct: 404 STIRDPSAGSSGALDSLRNAFSSAENSCPGI 434
>gnl|CDD|35571 KOG0350, KOG0350, KOG0350, DEAD-box ATP-dependent RNA helicase [RNA
processing and modification].
Length = 620
Score = 28.1 bits (62), Expect = 8.6
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDP-KMLELSVYD 461
I V TGSGK++A I+ LL R +++ P + L L VYD
Sbjct: 186 ICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYD 233
>gnl|CDD|30033 cd00530, PTE, Phosphotriesterase (PTE) catalyzes the hydrolysis of
organophosphate nerve agents, including the chemical
warfare agents VX, soman, and sarin as well as the
insecticide paraoxon. PTE exists as a homodimer with one
active site per monomer. The active site is located next
to a binuclear metal center, at the C-terminal end of a
TIM alpha- beta barrel motif. The native enzyme
contains two zinc ions at the active site however these
can be replaced with other metals such as cobalt,
cadmium, nickel or manganese and the enzyme remains
active..
Length = 293
Score = 28.3 bits (63), Expect = 8.7
Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 9/64 (14%)
Query: 516 EKPQGCGDDMRPMPYIVIIVDEMADLMMVAGKEIEGA--------IQRLAQMARAAGIHL 567
+ DD +E+ G+ I A +++LA++ARA G+++
Sbjct: 17 VRDPPEVDDFDLADVEAAK-EELKRFRAHGGRTIVDATPPGIGRDVEKLAEVARATGVNI 75
Query: 568 IMAT 571
+ AT
Sbjct: 76 VAAT 79
>gnl|CDD|31921 COG1735, Php, Predicted metal-dependent hydrolase with the
TIM-barrel fold [General function prediction only].
Length = 316
Score = 28.3 bits (63), Expect = 8.8
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 8/47 (17%)
Query: 533 IIVDEMADLMMVAGKEIEGA--------IQRLAQMARAAGIHLIMAT 571
+ + E+ LM G+ I A + ++ ++A A G++++ AT
Sbjct: 49 LAIAELKRLMARGGQTIVDATNIGIGRDVLKMRRVAEATGLNIVAAT 95
>gnl|CDD|107296 cd06301, PBP1_rhizopine_binding_like, Periplasmic binding proteins
specific to rhizopines. Periplasmic binding proteins
specific to rhizopines, which are simple sugar-like
compounds produced in the nodules induced by the
symbiotic root nodule bacteria, such as Rhizobium and
Sinorhizobium. Rhizopine-binding-like proteins from
other bacteria are also included. Two inositol based
rhizopine compounds are known to date:
L-3-O-methly-scyllo-inosamine (3-O-MSI) and
scyllo-inosamine. Bacterial strains that can metabolize
rhizopine have a greater competitive advantage in
nodulation and rhizopine synthesis is regulated by
NifA/NtrA regulatory transcription activators which are
maximally expressed at the onset of nitrogen fixation in
bacteroids. The members of this group belong to the
pentose/hexose sugar-binding protein family of the type
I periplasmic binding protein superfamily.
Length = 272
Score = 28.0 bits (63), Expect = 8.9
Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 12/74 (16%)
Query: 552 AIQRLAQMARAAGIHLIMATQRPSVDVITGTIKANFPIRISFQVTSK-IDSRTILGEHGA 610
A + + A AAGI L+ +RP N P +++ V S + + + E+ A
Sbjct: 69 ATAPIVKAANAAGIPLVYVNRRPE----------NAPKGVAY-VGSDEVVAGRLQAEYVA 117
Query: 611 EQLLGRGDMLYMSG 624
++L G+G++ + G
Sbjct: 118 DKLGGKGNVAILMG 131
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
0.315 0.131 0.372
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,640,502
Number of extensions: 454442
Number of successful extensions: 1478
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1466
Number of HSP's successfully gapped: 57
Length of query: 744
Length of database: 6,263,737
Length adjustment: 101
Effective length of query: 643
Effective length of database: 4,081,228
Effective search space: 2624229604
Effective search space used: 2624229604
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: 61 (27.4 bits)