RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780606|ref|YP_003065019.1| cell division protein
[Candidatus Liberibacter asiaticus str. psy62]
(744 letters)
>gnl|CDD|182344 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
Length = 1355
Score = 492 bits (1268), Expect = e-139
Identities = 242/467 (51%), Positives = 326/467 (69%), Gaps = 19/467 (4%)
Query: 290 LEKNAGSLETILEEFGIKGEIINVNPGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSL 349
LE+ A +E L +F IK +++N +PGPV+T +E APG+K++R+ L+ D+ARS+S++
Sbjct: 887 LEQMARLVEARLADFRIKADVVNYSPGPVITRFELNLAPGVKAARISNLSRDLARSLSTV 946
Query: 350 SARVA-VIPKRNAIGIELPNETRETVYLRQIIESRSFSHSKANLALCLGKTISGESVIAD 408
+ RV VIP + +G+ELPN+ R+TVYLR+++++ F + + L + LGK I+GE V+AD
Sbjct: 947 AVRVVEVIPGKPYVGLELPNKKRQTVYLREVLDNAKFRDNPSPLTVVLGKDIAGEPVVAD 1006
Query: 409 LANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLT 468
LA MPH+LVAGTTGSGKSV +N MI+S+LY+ +P++ R IM+DPKMLELSVY+GIPHLLT
Sbjct: 1007 LAKMPHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKMLELSVYEGIPHLLT 1066
Query: 469 PVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERI--STMYGE-------KPQ 519
VVT+ K A AL+W V EME RY+ MS L VRN+ YNE+I + KP
Sbjct: 1067 EVVTDMKDAANALRWCVNEMERRYKLMSALGVRNLAGYNEKIAEADRMMRPIPDPYWKPG 1126
Query: 520 GCGDDMRP----MPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPS 575
D P PYIV++VDE ADLMM GK++E I RLAQ ARAAGIHL++ATQRPS
Sbjct: 1127 DSMDAQHPVLKKEPYIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPS 1186
Query: 576 VDVITGTIKANFPIRISFQVTSKIDSRTILGEHGAEQLLGRGDMLYMSGGGRIQ--RVHG 633
VDVITG IKAN P RI+F V+SKIDSRTIL + GAE LLG GDMLY SG RVHG
Sbjct: 1187 VDVITGLIKANIPTRIAFTVSSKIDSRTILDQAGAESLLGMGDMLY-SGPNSTLPVRVHG 1245
Query: 634 PLVSDIEIEKVVQHLKKQGCPEYLNTVTTDTDTDKDGNNFDSEEKKERSNLYAKAVDLVI 693
V D E+ VVQ K +G P+Y++ +T+D++++ FD E E L+ +AV V
Sbjct: 1246 AFVRDQEVHAVVQDWKARGRPQYVDGITSDSESEGGAGGFDGAE--ELDPLFDQAVQFVT 1303
Query: 694 DNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHVFS 740
+ ++ S S +QR+ +IGYNRAA ++E+ME +G+VSE H G R V +
Sbjct: 1304 EKRKASISGVQRQFRIGYNRAARIIEQMEAQGIVSEQGHNGNREVLA 1350
>gnl|CDD|150161 pfam09397, Ftsk_gamma, Ftsk gamma domain. This domain directs
oriented DNA translocation and forms a winged helix
structure. Mutated proteins with substitutions in the
FtsK gamma DNA-recognition helix are impaired in DNA
binding.
Length = 67
Score = 96.8 bits (242), Expect = 2e-20
Identities = 31/55 (56%), Positives = 42/55 (76%)
Query: 684 LYAKAVDLVIDNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHV 738
LY +AV+ VI+ Q+ STS +QRRL+IGYNRAA L+E+ME+EG+V A+ R V
Sbjct: 8 LYDEAVEFVIETQKASTSLLQRRLRIGYNRAARLIEQMEEEGIVGPANGSKPREV 62
>gnl|CDD|129076 smart00843, Ftsk_gamma, This domain directs oriented DNA
translocation and forms a winged helix structure.
Mutated proteins with substitutions in the FtsK gamma
DNA-recognition helix are impaired in DNA binding.
Length = 63
Score = 96.3 bits (241), Expect = 3e-20
Identities = 30/56 (53%), Positives = 43/56 (76%)
Query: 684 LYAKAVDLVIDNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHVF 739
LY +AV+LVI+ Q+ STS +QRRL+IGYNRAA L++++E+EG+V A+ R V
Sbjct: 6 LYDEAVELVIETQKASTSLLQRRLRIGYNRAARLIDQLEEEGIVGPANGSKPREVL 61
>gnl|CDD|150993 pfam10412, TrwB_AAD_bind, Type IV secretion-system coupling protein
DNA-binding domain. The plasmid conjugative coupling
protein TrwB forms hexamers from six structurally very
similar protomers. This hexamer contains a central
channel running from the cytosolic pole (made up by the
AADs) to the membrane pole ending at the transmembrane
pore shaped by 12 transmembrane helices, rendering an
overall mushroom-like structure. The TrwB_AAD (all-alpha
domain) domain appears to be the DNA-binding domain of
the structure. TrwB, a basic integral inner-membrane
nucleoside-triphosphate-binding protein, is the
structural prototype for the type IV secretion system
coupling proteins, a family of proteins essential for
macromolecular transport between cells and export.
Length = 386
Score = 43.7 bits (104), Expect = 2e-04
Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPK 453
TI+G + HIL+ GTTG+GK+ A+ ++ + R R D R I+ DP
Sbjct: 3 TIAGVPLPRRSETQ-HILIVGTTGTGKTQALRELLDQI--RARGD--RAIIYDPT 52
>gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 42.0 bits (98), Expect = 6e-04
Identities = 30/181 (16%), Positives = 59/181 (32%), Gaps = 45/181 (24%)
Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTN 473
IL+ G GSGK+ T+ +L L P +I +D + + V D + ++
Sbjct: 4 VILIVGPPGSGKT----TLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKA 59
Query: 474 PKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVI 533
+ +R RK + V+
Sbjct: 60 SGSGEL----RLRLALALARK---------------------------------LKPDVL 82
Query: 534 IVDEMADLMMVAGKEIEGAIQR---LAQMARAAGIHLIMATQRPSVDVITGTIKANFPIR 590
I+DE+ L+ + + ++ L + + +I+ T D+ ++ F R
Sbjct: 83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEK-DLGPALLRRRFDRR 141
Query: 591 I 591
I
Sbjct: 142 I 142
>gnl|CDD|163456 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
family. Members of this protein family are predicted
ATP-binding proteins apparently associated with DNA
conjugal transfer. Members are found both in plasmids
and in bacterial chromosomal regions that appear to
derive from integrative elements such as conjugative
transposons. More distant homologs, outside the scope of
this family, include type IV secretion/conjugal transfer
proteins such as TraC, VirB4 and TrsE. The granularity
of this protein family definition is chosen so as to
represent one distinctive clade and act as a marker
through which to define and recognize the class of
mobile element it serves.
Length = 893
Score = 38.9 bits (91), Expect = 0.004
Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
H+L+ G TG+GKS + ++M ++ RP R+ +V+
Sbjct: 477 HLLILGPTGAGKSATLTNLLMQVMAVHRP---RLFIVE 511
>gnl|CDD|131806 TIGR02759, TraD_Ftype, type IV conjugative transfer system coupling
protein TraD. The TraD protein performs an essential
coupling function in conjugative type IV secretion
systems. This protein sits at the inner membrane in
contact with the assembled pilus and its scaffold as
well as the relaxosome-plasmid DNA complex (through
TraM).
Length = 566
Score = 37.8 bits (88), Expect = 0.010
Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 4/38 (10%)
Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
HIL+ GTTGSGKSVA I LL +R R I+ D
Sbjct: 178 HILIHGTTGSGKSVA----IRKLLRWIRQRGDRAIIYD 211
>gnl|CDD|163455 TIGR03743, SXT_TraD, conjugative coupling factor TraD, SXT/TOL
subfamily. Members of this protein family are the
putative conjugative coupling factor, TraD (or TraG),
rather distantly related to the well-characterized TraD
of the F plasmid. Members are associated with
conjugative-transposon-like mobile genetic elements of
the class that includes SXT, an antibiotic resistance
transfer element in some Vibrio cholerae strains.
Length = 634
Score = 34.2 bits (79), Expect = 0.11
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 403 ESVIADLANMP-HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPK 453
E V L + H LV GTTG GK+ +I + R + +I++DPK
Sbjct: 166 EDVYLPLGHRVGHTLVLGTTGVGKTRLAELLITQDIRR---GDV-VIVIDPK 213
Score = 29.6 bits (67), Expect = 2.7
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 522 GDDMRPMPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQ 572
G P I + VDE A+ + + IQ L R AG + ATQ
Sbjct: 477 GIGKSKPPRINLHVDEAAEAIN------DPFIQ-LLNKGRGAGFQVTAATQ 520
>gnl|CDD|162997 TIGR02746, TraC-F-type, type-IV secretion system protein TraC. The
protein family described here is common among the F, P
and I-like type IV secretion systems. Gene symbols
include TraC (F-type), TrbE/VirB4 (P-type) and TraU
(I-type). The protein conyains the Walker A and B motifs
and so is a putative nucleotide triphosphatase.
Length = 797
Score = 34.2 bits (79), Expect = 0.11
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLL 437
I V G +G+GKS + +I+ L
Sbjct: 433 IAVVGGSGAGKSFFMQELIVDNL 455
>gnl|CDD|184357 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
Length = 811
Score = 33.7 bits (78), Expect = 0.17
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 414 HILVAGTTGSGKSVAINTMIM 434
H LV G TG+GKSV + M +
Sbjct: 443 HTLVVGPTGAGKSVLLALMAL 463
>gnl|CDD|183479 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
Length = 400
Score = 32.9 bits (75), Expect = 0.29
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 9/80 (11%)
Query: 294 AGSLETILEEFGIKGEIINVNPGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSLSARV 353
LE I++ F G+ V PGP + Y EPA G+ S L ++ ++ + S +
Sbjct: 159 PERLEEIIDAFA-AGKGPVVKPGPQIGRYASEPAGGLTS-----LTEEAGKARYNASKAL 212
Query: 354 AV---IPKRNAIGIELPNET 370
A + G E+P
Sbjct: 213 AEDIGDTVKRIDGTEVPLLA 232
>gnl|CDD|162351 TIGR01420, pilT_fam, pilus retraction protein PilT. This model
represents the PilT subfamily of proteins related to
GspE, a protein involved in type II secretion (also
called the General Secretion Pathway). PilT is an
apparent cytosolic ATPase associated with type IV pilus
systems. It is not required for pilin biogenesis, but is
required for twitching motility and social gliding
behaviors, shown in some species, powered by pilus
retraction. Members of this family may be found in some
species that type IV pili but have related structures
for DNA uptake and natural transformation.
Length = 343
Score = 32.3 bits (74), Expect = 0.48
Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 405 VIADLANMPH--ILVAGTTGSGKSVAINTMI 433
V+ +LA P ILV G TGSGKS + +MI
Sbjct: 113 VLRELAERPRGLILVTGPTGSGKSTTLASMI 143
>gnl|CDD|184377 PRK13894, PRK13894, conjugal transfer ATPase TrbB; Provisional.
Length = 319
Score = 31.6 bits (72), Expect = 0.75
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 403 ESVIADLANMPHILVAGTTGSGKSVAINTMI 433
E++IA + +ILV G TGSGK+ +N +I
Sbjct: 139 EAIIAAVRAHRNILVIGGTGSGKTTLVNAII 169
>gnl|CDD|183503 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
Length = 337
Score = 31.1 bits (71), Expect = 1.2
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 406 IADLANMPHILVAGTTGSGKSVAI 429
D N+PH+LV G GSGK+ A+
Sbjct: 30 AVDSPNLPHLLVQGPPGSGKTAAV 53
>gnl|CDD|162543 TIGR01813, flavo_cyto_c, flavocytochrome c. This model describes a
family of redox proteins related to the succinate
dehydrogenases and fumarate reductases of E. coli,
mitochondria, and other well-characterized systems. A
member of this family from Shewanella frigidimarina
NCIMB400 is characterized as a water-soluble periplasmic
protein with four heme groups, a non-covalently bound
FAD, and essentially unidirectional fumarate reductase
activity. At least seven distinct members of this family
are found in Shewanella oneidensis, a species able to
use a wide variety of pathways for respiraton.
Length = 439
Score = 30.8 bits (70), Expect = 1.2
Identities = 30/102 (29%), Positives = 40/102 (39%), Gaps = 11/102 (10%)
Query: 603 TILGEHGAE--QLLGRG-----DMLYMSGGGRIQRVH---GPLVSDIEI-EKVVQHLKKQ 651
IL E A+ L G D L GG + R H G S EI +K+ + KK+
Sbjct: 84 RILAEESADAVDWLQDGVGARLDDLIQLGGHSVPRAHRPTGGAGSGAEIVQKLYKKAKKE 143
Query: 652 GCPEYLNTVTTDTDTDKDGNNFDSEEKKERSNLYAKAVDLVI 693
G LN+ D D G K + +Y KA V+
Sbjct: 144 GIDTRLNSKVEDLIQDDQGTVVGVVVKGKGKGIYIKAAKAVV 185
>gnl|CDD|180064 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
Length = 288
Score = 30.8 bits (71), Expect = 1.3
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 410 ANMPHILVAGTTGSGKSVAINTM 432
A M ++V G +G+GKSVA+ +
Sbjct: 4 APMRLVIVTGLSGAGKSVALRAL 26
>gnl|CDD|180621 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
Validated.
Length = 953
Score = 30.7 bits (70), Expect = 1.4
Identities = 19/64 (29%), Positives = 24/64 (37%), Gaps = 21/64 (32%)
Query: 668 KDGNNFDSEEKKERSNLYAKAVDLVIDNQRCSTSFIQ-------------RRLQIGY-NR 713
+D FD E + AV+LVI S F R+L +GY N
Sbjct: 381 RDDGTFDVE-------SFRHAVELVITAMEISICFADFPTEKIARNTRAFRQLGLGYANL 433
Query: 714 AALL 717
ALL
Sbjct: 434 GALL 437
>gnl|CDD|149599 pfam08601, PAP1, Transcription factor PAP1. The transcription
factor Pap1 regulates antioxidant-gene transcription in
response to H2O2. This region is cysteine rich.
Alkylation of cysteine residues following treatment with
a cysteine alkylating agent can mask the accessibility
of the nuclear exporter Crm1, triggering nuclear
accumulation and Pap1 dependent transcriptional
expression.
Length = 344
Score = 30.7 bits (69), Expect = 1.4
Identities = 31/189 (16%), Positives = 54/189 (28%), Gaps = 19/189 (10%)
Query: 82 STSSLVYLKNRFMMNRNSVADQFNSQKTPHKLHLVQKNGSHPDP------NMQKETIEPS 135
S + L ++ N NS +D +S L+ G+ P+P + P+
Sbjct: 108 SPNGLQSSATQYNSNDNSSSDSPSSGSDGFTNQLLSSLGTSPEPSTESPPQLASVNNFPA 167
Query: 136 LDVIEEVNTDTASNVSDQINQNPDTLSWLSDFAFFEGLSTPHSFLSF------NDHHQYT 189
+ E N++ S S P+ AF G P F + N +
Sbjct: 168 IRNNAESNSNVPSAAS----STPNIPGIDFLLAFPGGQFDPELFGDYREPQDANLSDDFD 223
Query: 190 PIP-IQSAEDLSDHTDLAPHMSTEYLHNKKIRTDSTPTTAGDQQKKSSIDHKPSSSNTMT 248
P + D L+P + + + P KK D +
Sbjct: 224 PNGLFNDEFSMPDP--LSPFHFNDKDYLSPSPDEGPPDAQVAGPKKDLADQIDNQDEDEE 281
Query: 249 EHMFQDTSQ 257
+
Sbjct: 282 VVVPSKEDT 290
>gnl|CDD|128763 smart00487, DEXDc, DEAD-like helicases superfamily.
Length = 201
Score = 30.5 bits (69), Expect = 1.6
Identities = 28/169 (16%), Positives = 64/169 (37%), Gaps = 43/169 (25%)
Query: 409 LANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLT 468
L+ + +++A TGSGK++A ++ L L+ + + +
Sbjct: 21 LSGLRDVILAAPTGSGKTLA---ALLPALEALKRGKGKRV-------------------- 57
Query: 469 PVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYN--ERISTMYGEKPQ------G 520
+V P + + A +WA E+++ + V + E++ + K G
Sbjct: 58 -LVLVPTREL-AEQWA-EELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPG 114
Query: 521 CGDDMRPMP------YIVIIVDEMADLM--MVAGKEIEGAIQRLAQMAR 561
D+ ++I+DE A + G ++E ++ L + +
Sbjct: 115 RLLDLLENDLLELSNVDLVILDE-AHRLLDGGFGDQLEKLLKLLPKNVQ 162
>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
Length = 319
Score = 30.5 bits (69), Expect = 1.7
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLL 437
+S VIA NMP+++++G G+GK+ +I + LL
Sbjct: 21 AVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59
>gnl|CDD|131672 TIGR02623, G1P_cyt_trans, glucose-1-phosphate cytidylyltransferase.
Members of this family are the enzyme
glucose-1-phosphate cytidylyltransferase, also called
CDP-glucose pyrophosphorylase, the product of the rfbF
gene.
Length = 254
Score = 30.5 bits (69), Expect = 1.7
Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 18/92 (19%)
Query: 585 ANFPIRISFQVTSKIDSRTILGEHGAE----QLLGRGDMLYMSGGGRIQRV--------- 631
AN+ + +S D+ + E L+ G+ GGR++RV
Sbjct: 64 ANYFLHMSDVTFHMADNTMEVHHKRVEPWRVTLVDTGES--TQTGGRLKRVREYLDDEAF 121
Query: 632 ---HGPLVSDIEIEKVVQHLKKQGCPEYLNTV 660
+G V+DI+I+ ++ +K G + V
Sbjct: 122 CFTYGDGVADIDIKALIAFHRKHGKKATVTAV 153
>gnl|CDD|163531 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
Members of this protein family comprise a distinct
clade of putative ATPase associated with an integral
membrane complex likely to act in pilus formation,
secretion, or conjugal transfer. The association of most
members with a nearby gene for a DEAH-box helicase
suggests a role in conjugal transfer.
Length = 340
Score = 30.4 bits (69), Expect = 1.8
Identities = 15/37 (40%), Positives = 26/37 (70%), Gaps = 5/37 (13%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
L++G TGSGK+ T++ +LL + PDE R+++V+
Sbjct: 181 FLISGGTGSGKT----TLLSALLALVAPDE-RIVLVE 212
>gnl|CDD|131585 TIGR02533, type_II_gspE, general secretory pathway protein E. This
family describes GspE, the E protein of the type II
secretion system, also called the main terminal branch
of the general secretion pathway. This model separates
GspE from the PilB protein of type IV pilin
biosynthesis.
Length = 486
Score = 30.0 bits (68), Expect = 2.0
Identities = 20/47 (42%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 409 LANMPH--ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMV-DP 452
L PH ILV G TGSGK+ T + + L RL E ++ V DP
Sbjct: 237 LIRRPHGIILVTGPTGSGKT----TTLYAALSRLNTPERNILTVEDP 279
>gnl|CDD|162115 TIGR00929, VirB4_CagE, type IV secretion/conjugal transfer ATPase,
VirB4 family. Type IV secretion systems are found in
Gram-negative pathogens. They export proteins, DNA, or
complexes in different systems and are related to
plasmid conjugation systems. This model represents
related ATPases that include VirB4 in Agrobacterium
tumefaciens (DNA export) CagE in Helicobacter pylori
(protein export) and plasmid TraB (conjugation).
Length = 785
Score = 30.0 bits (68), Expect = 2.5
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 414 HILVAGTTGSGKSVAINTMIMSLL 437
H L+ G TGSGK+ +N ++ +
Sbjct: 436 HTLIFGPTGSGKTTLLNFLLAQMQ 459
>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
Length = 263
Score = 29.1 bits (65), Expect = 4.5
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 13/52 (25%)
Query: 294 AGSLETILEEFGIKGEIIN-VNPGPVVTLYEFEPAPGIKSSRVIGLADDIAR 344
AG + T+ +E G KG +N + PG I++ RVI LA D A+
Sbjct: 165 AGLVRTLAKELGPKGITVNGIMPGI------------IRTDRVIQLAQDRAK 204
>gnl|CDD|114590 pfam05872, DUF853, Bacterial protein of unknown function (DUF853).
This family consists of several bacterial proteins of
unknown function. One member from Brucella melitensis is
thought to be an ATPase.
Length = 504
Score = 28.9 bits (65), Expect = 4.7
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 407 ADLANMPHILVAGTTGSGKSVAINTMIMSL 436
+AN H L+AG TG+GK+V + + S
Sbjct: 17 LGMANR-HGLIAGATGTGKTVTLQVLAESF 45
>gnl|CDD|182878 PRK10976, PRK10976, putative hydrolase; Provisional.
Length = 266
Score = 28.9 bits (65), Expect = 4.9
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 562 AAGIHLIMATQRPSVDVITGTIKANFPIRISFQVTS 597
A GIH + AT R VDV G I+ N I+ S+ +TS
Sbjct: 33 ARGIHFVFATGRHHVDV--GQIRDNLEIK-SYMITS 65
>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
Length = 257
Score = 28.8 bits (65), Expect = 5.9
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 290 LEKNAGSLETILEEFGIKGEIINVNPGPVVTLY 322
LE A ++ L+ FGI+ + VNPGP +T +
Sbjct: 152 LEAIAEAMHAELKPFGIQ--VATVNPGPYLTGF 182
>gnl|CDD|180573 PRK06460, PRK06460, hypothetical protein; Provisional.
Length = 376
Score = 28.6 bits (64), Expect = 6.1
Identities = 33/128 (25%), Positives = 54/128 (42%), Gaps = 18/128 (14%)
Query: 344 RSMSSLSARVAVIPKRNAIGI-ELPNETRETVYLRQIIESRSFSHSKANLALCLGKTISG 402
R + +L R+ VI RNA I E + V ++ SH +A + K G
Sbjct: 235 RGIKTLKIRMDVI-NRNAEQIAEFLEGHPKVV---KVYYPGLKSHVDYEIARRVLKGFGG 290
Query: 403 ----------ESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYR-LRPDECRMIMVD 451
ES + + ++ I+ A T G SV + MS +R L +E +++ +
Sbjct: 291 VLSFEVNGGQESALKVMKSLKLIIPAQTLGGVNSVISHPATMS--HRTLSLEERKIVGIT 348
Query: 452 PKMLELSV 459
+L LSV
Sbjct: 349 DSLLRLSV 356
>gnl|CDD|182509 PRK10513, PRK10513, sugar phosphate phosphatase; Provisional.
Length = 270
Score = 28.5 bits (64), Expect = 6.5
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 528 MPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDV 578
M +I +D M +++ I A+++ ARA G+++++ T RP V
Sbjct: 1 MAIKLIAID-MDGTLLLPDHTISPAVKQAIAAARAKGVNVVLTTGRPYAGV 50
>gnl|CDD|182459 PRK10436, PRK10436, hypothetical protein; Provisional.
Length = 462
Score = 28.0 bits (63), Expect = 8.8
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPD 443
ILV G TGSGK+V T+ +L
Sbjct: 221 ILVTGPTGSGKTV---TLYSALQTLNTAQ 246
>gnl|CDD|179026 PRK00440, rfc, replication factor C small subunit; Reviewed.
Length = 319
Score = 27.9 bits (63), Expect = 8.8
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 411 NMPHILVAGTTGSGKSVA 428
NMPH+L AG G+GK+ A
Sbjct: 37 NMPHLLFAGPPGTGKTTA 54
>gnl|CDD|181240 PRK08126, PRK08126, hypothetical protein; Provisional.
Length = 432
Score = 28.1 bits (63), Expect = 9.3
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 616 RGDMLYMSGGGRIQRVHGPLVSDI--EIEKV 644
RGD +++ G + GPL++ I EI +V
Sbjct: 322 RGDAMFVPGQATVNPAMGPLIAKIAREIARV 352
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 27.7 bits (62), Expect = 9.7
Identities = 22/99 (22%), Positives = 38/99 (38%), Gaps = 31/99 (31%)
Query: 338 LADDIARSMSSLSARVAVIPKRNAIGIELPNETRETVYLRQIIESRSFSHSKANLALCLG 397
+A +IA++ + R A P+ I P E+ S K ++
Sbjct: 46 IAKEIAQAAQRVLLREAARPE-----ITYP-------------ENLPVSQKKQDIL---- 83
Query: 398 KTISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSL 436
+ I V+ +VAG TGSGK+ + + + L
Sbjct: 84 EAIRDHQVV---------IVAGETGSGKTTQLPKICLEL 113
>gnl|CDD|166874 PRK00257, PRK00257, erythronate-4-phosphate dehydrogenase;
Validated.
Length = 381
Score = 27.7 bits (62), Expect = 10.0
Identities = 11/58 (18%), Positives = 15/58 (25%)
Query: 15 PHKQVDLKSFVPPWHEAFLLAPNVRFTRTPENDLNRYRNNSTLQQPKETEHSIGDYLH 72
Q+DL + P L V R + R QQ + Y
Sbjct: 294 WLAQIDLDASADPAWALATLCRAVYDPRRDDAAFRRSLTGDVAQQRAAFDALRKHYPL 351
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 0.131 0.372
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,895,050
Number of extensions: 774628
Number of successful extensions: 1773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1769
Number of HSP's successfully gapped: 47
Length of query: 744
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 643
Effective length of database: 3,812,065
Effective search space: 2451157795
Effective search space used: 2451157795
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 (27.3 bits)