RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7959
(101 letters)
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 105 bits (265), Expect = 3e-28
Identities = 40/100 (40%), Positives = 61/100 (61%), Gaps = 9/100 (9%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
+ EI V+ AT +FGMGID+ +VRFV+H+ +P SI +YYQE+GRAGRDGL + + +S
Sbjct: 277 LNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYSP 336
Query: 61 HSKKSLEYVIKT----DTSTKREQLELKFKNYLSMLEYCE 96
+ Y+I+ + + E +L+ M+ YCE
Sbjct: 337 EDIRWQRYLIEQSKPDEEQKQIELAKLR-----QMIAYCE 371
>gnl|CDD|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family. All
proteins in this family for which functions are known
are 3'-5' DNA-DNA helicases. These proteins are used for
recombination, recombinational repair, and possibly
maintenance of chromosome stability. This family is
based on the phylogenomic analysis of JA Eisen (1999,
Ph.D. Thesis, Stanford University) [DNA metabolism, DNA
replication, recombination, and repair].
Length = 470
Score = 104 bits (262), Expect = 5e-28
Identities = 40/96 (41%), Positives = 62/96 (64%), Gaps = 3/96 (3%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
R EI V+ AT++FGMGI++ +VRFV+H+ +P S+ +YYQESGRAGRDGL S C ++++
Sbjct: 273 QRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAP 332
Query: 61 HSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCE 96
L ++ + ++ +LK M+EYC
Sbjct: 333 ADINRLRRLLMEEPDGQQRTYKLKL---YEMMEYCL 365
>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ. The
ATP-dependent DNA helicase RecQ of E. coli is about 600
residues long. This model represents bacterial proteins
with a high degree of similarity in domain architecture
and in primary sequence to E. coli RecQ. The model
excludes eukaryotic and archaeal proteins with RecQ-like
regions, as well as more distantly related bacterial
helicases related to RecQ [DNA metabolism, DNA
replication, recombination, and repair].
Length = 591
Score = 97.1 bits (242), Expect = 4e-25
Identities = 38/97 (39%), Positives = 61/97 (62%), Gaps = 3/97 (3%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
+ ++ V+ AT +FGMGID+ NVRFV+H+ MP ++ +YYQE+GRAGRDGL + + +S
Sbjct: 271 LYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSP 330
Query: 61 HSKKSLEYVIKTDTST-KREQLELKFKNYLSMLEYCE 96
L+ I+ + +Q+E + +M+ YCE
Sbjct: 331 ADIALLKRRIEQSEADDDYKQIEREKLR--AMIAYCE 365
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 89.2 bits (221), Expect = 3e-22
Identities = 44/107 (41%), Positives = 63/107 (58%), Gaps = 15/107 (14%)
Query: 4 EINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHSK 63
EIN+I AT++FGMGI++ +VRFV+H +P SI Y+QE GRAGRDG +S C +Y+S
Sbjct: 730 EINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDY 789
Query: 64 KSLEYVI--------------KTDTSTKREQLELKFKNYLSMLEYCE 96
++++I S+ R LE +N L M+ YCE
Sbjct: 790 IRVKHMISQGGVEQSPMAMGYNRMASSGR-ILETNTENLLRMVSYCE 835
>gnl|CDD|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional.
Length = 607
Score = 83.6 bits (207), Expect = 3e-20
Identities = 29/49 (59%), Positives = 42/49 (85%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGL 50
R ++ ++ AT++FGMGI++ NVRFVVH+ +P +I +YYQE+GRAGRDGL
Sbjct: 284 RDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGL 332
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 59.9 bits (146), Expect = 5e-13
Identities = 22/56 (39%), Positives = 30/56 (53%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIY 57
GEI V+ AT GID NV V+++ +P S +Y Q GRAGR G + +
Sbjct: 76 EGEIVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety
of helicases and helicase related proteins. It may be
that this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 58.3 bits (142), Expect = 6e-13
Identities = 19/48 (39%), Positives = 28/48 (58%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ V+ AT G GID +V V+++ +P + +Y Q GRAGR G
Sbjct: 31 NGKSKVLVATDVAGRGIDLPDVNLVINYDLPWNPASYIQRIGRAGRAG 78
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 58.0 bits (141), Expect = 8e-13
Identities = 19/48 (39%), Positives = 26/48 (54%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+I V+ AT G+D V V+ + +P S +Y Q GRAGR G
Sbjct: 35 NGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
>gnl|CDD|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase;
Provisional.
Length = 518
Score = 42.9 bits (101), Expect = 5e-06
Identities = 21/47 (44%), Positives = 28/47 (59%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
GE+ VI AT G G+D VR V+ + MP++I Y + GRA R G
Sbjct: 417 GEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMG 463
>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA
replication, recombination, and repair / Transcription /
Translation, ribosomal structure and biogenesis].
Length = 513
Score = 42.5 bits (100), Expect = 7e-06
Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYC-RIYHS 59
GE+ V+ AT G+D +V V+++ +P Y GR GR G +
Sbjct: 320 KDGELRVLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAISFVTE 379
Query: 60 EHSKKSLEYVIKT 72
E K L+ + K
Sbjct: 380 EEEVKKLKRIEKR 392
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 37.0 bits (86), Expect = 6e-04
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPS-SIPAYYQESGRAGRDGLQSY-CRIYHS 59
GE+ + AT + +GID ++ V+ +G P S+ ++ Q +GRAGR G +S + S
Sbjct: 362 EGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRS 421
Query: 60 EH 61
+
Sbjct: 422 DP 423
>gnl|CDD|234365 TIGR03817, DECH_helic, helicase/secretion neighborhood putative
DEAH-box helicase. A conserved gene neighborhood widely
spread in the Actinobacteria contains this
uncharacterized DEAH-box family helicase encoded
convergently towards an operon of genes for protein
homologous to type II secretion and pilus formation
proteins. The context suggests that this helicase may
play a role in conjugal transfer of DNA.
Length = 742
Score = 36.6 bits (85), Expect = 7e-04
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
GE+ + T + +G+D + VV G P + + +Q++GRAGR G
Sbjct: 327 DGELLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRG 374
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 36.5 bits (85), Expect = 8e-04
Identities = 17/46 (36%), Positives = 25/46 (54%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGR 47
GE+ + AT S +GID ++ V+ G P S+ + Q GRAG
Sbjct: 302 EGELKAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGH 347
>gnl|CDD|137505 PRK09751, PRK09751, putative ATP-dependent helicase Lhr;
Provisional.
Length = 1490
Score = 35.3 bits (81), Expect = 0.003
Identities = 17/44 (38%), Positives = 23/44 (52%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAG 46
GE+ + AT S +GID V V+ P S+ + Q GRAG
Sbjct: 326 GELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAG 369
>gnl|CDD|185609 PTZ00424, PTZ00424, helicase 45; Provisional.
Length = 401
Score = 35.2 bits (81), Expect = 0.003
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ T GID Q V V+++ +P+S Y GR+GR G
Sbjct: 316 GSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFG 362
>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional.
Length = 434
Score = 34.5 bits (80), Expect = 0.004
Identities = 19/47 (40%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G +NV+ AT GID +V V+++ MP S Y GR GR G
Sbjct: 294 GRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAG 340
>gnl|CDD|237497 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 33.7 bits (78), Expect = 0.007
Identities = 18/45 (40%), Positives = 25/45 (55%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAG 46
RGE+ V+ ++ S +GID + VV G P S+ Q GRAG
Sbjct: 338 RGELKVVVSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAG 382
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 32.8 bits (75), Expect = 0.015
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 17 GIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+D ++V++V+++ P+ I Y GR GR G
Sbjct: 440 GLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAG 472
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 32.6 bits (74), Expect = 0.021
Identities = 16/49 (32%), Positives = 23/49 (46%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQ 51
G+I V+ AT G GI + V+++ +P Y GR GR G
Sbjct: 384 GKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGAS 432
>gnl|CDD|235032 PRK02362, PRK02362, ski2-like helicase; Provisional.
Length = 737
Score = 31.9 bits (73), Expect = 0.032
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 3 GEINVITATISFGMG--------IDRQNVRFVVHWGM-PSSIPAYYQESGRAGRDGLQSY 53
I VI++T + G I R R+ GM P + Y+Q +GRAGR GL Y
Sbjct: 328 RLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGRPGLDPY 387
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 30.0 bits (68), Expect = 0.18
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 9/92 (9%)
Query: 2 RGEINVITATISFGMG--------IDRQNVRFVVHWGM-PSSIPAYYQESGRAGRDGLQS 52
+G+I V+ +T + G I + R+ G+ + Q +GRAGR G
Sbjct: 338 KGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPGYDD 397
Query: 53 YCRIYHSEHSKKSLEYVIKTDTSTKREQLELK 84
Y S LEY+ + ++ E +E K
Sbjct: 398 YGEAIILATSHDELEYLAELYIQSEPEPIESK 429
>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 29.4 bits (66), Expect = 0.26
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G ++++ AT G+D + + VV++ +P +Y GR GR G
Sbjct: 294 GRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAG 340
>gnl|CDD|132513 TIGR03473, HpnK, hopanoid biosynthesis associated protein HpnK.
The sequences represented by this model are members of
the pfam04794 "YdjC-like" family of uncharacterized
proteins. The member of this clade from
Acidithiobacillus ferrooxidans ATCC 23270 (AFE_0976) is
found in the same locus as squalene-hopene cyclase (SHC,
TIGR01507) and other genes associated with the
biosynthesis of hopanoid natural products. Similarly, in
Ralstonia eutropha JMP134 (Reut_B4902) this gene is
adjacent to HpnAB, IspH and HpnH (TIGR03470), although
SHC itself is elsewhere in the genome. Notably, this
gene (here named HpnK) and three others form a conserved
set (HpnIJKL) which occur in a subset of all genomes
containing the SHC enzyme. This relationship was
discerned using the method of partial phylogenetic
profiling. This group includes Zymomonas mobilis, the
organism where the initial hopanoid biosynthesis locus
was described consisting of the genes HpnA-E and SHC
(HpnF). Continuing past SHC are found a phosphorylase
enzyme (ZMO0873, i.e. HpnG, TIGR03468) and a radical SAM
enzyme (ZMO0874), HpnH. Although discontinuous in Z.
mobilis, we continue the gene symbol sequence with
HpnIJKL.
Length = 283
Score = 28.6 bits (64), Expect = 0.41
Identities = 9/35 (25%), Positives = 13/35 (37%)
Query: 32 PSSIPAYYQESGRAGRDGLQSYCRIYHSEHSKKSL 66
P IP GR G D ++ R + + L
Sbjct: 72 PDQIPDLVDGQGRFGDDMVRDGVRYFFLPAVRAQL 106
>gnl|CDD|232963 TIGR00410, lacE, PTS system, lactose/cellobiose family IIC
component. Bacterial PTS transporters transport and
concomitantly phosphorylate their sugar substrates, and
typically consist of multiple subunits or protein
domains. This family of proteins consists of both the
cellobiose specific and the lactose specific forms of
the phosphotransferase system (PTS) IIC component. The
IIC domain catalyzes the transfer of a phosphoryl group
from the IIB domain to the substrate. When the IIC
component and IIB components are in the same polypeptide
chain they are designated IIBC [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids,
Signal transduction, PTS].
Length = 423
Score = 28.2 bits (63), Expect = 0.60
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 5 INVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESG 43
+ + I+ G+ V V W MP I ++ G
Sbjct: 350 VTITVTYIAMSTGLVPPPVGIAVPWTMPPGISGFFATGG 388
>gnl|CDD|232938 TIGR00359, cello_pts_IIC, phosphotransferase system, cellobiose
specific, IIC component. The family consists of the
cellobiose specific form of the phosphotransferase
system (PTS), IIC component [Transport and binding
proteins, Carbohydrates, organic alcohols, and acids,
Signal transduction, PTS].
Length = 423
Score = 28.2 bits (63), Expect = 0.60
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 5 INVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESG 43
+ + I+ G+ V V W MP I ++ G
Sbjct: 350 VTITVTYIAMSTGLVPPPVGIAVPWTMPPGISGFFATGG 388
>gnl|CDD|234773 PRK00461, rpmC, 50S ribosomal protein L29; Reviewed.
Length = 87
Score = 27.0 bits (60), Expect = 0.83
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 63 KKSLEYVIKTDTSTKREQLELKFKNYLSMLE 93
KKS+E + K K E L+FKN L+
Sbjct: 7 KKSVEELEKLVIELKAELFTLRFKNATGSLD 37
>gnl|CDD|227389 COG5056, ARE1, Acyl-CoA cholesterol acyltransferase [Lipid
metabolism].
Length = 512
Score = 27.9 bits (62), Expect = 1.0
Identities = 9/37 (24%), Positives = 13/37 (35%)
Query: 49 GLQSYCRIYHSEHSKKSLEYVIKTDTSTKREQLELKF 85
G S +I + S + + K EQLE
Sbjct: 218 GYLSIIKIELNGSSSILDKVKDSLNIPEKDEQLEKSC 254
>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional.
Length = 456
Score = 27.9 bits (62), Expect = 1.1
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGR 47
G+I V+ AT G+D + + VV++ +P+ Y GR GR
Sbjct: 294 GDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGR 338
>gnl|CDD|234478 TIGR04121, DEXH_lig_assoc, DEXH box helicase, DNA
ligase-associated. Members of this protein family are
DEAD/DEAH box helicases found associated with a
bacterial ATP-dependent DNA ligase, part of a four-gene
system that occurs in about 12 % of prokaryotic
reference genomes. The actual motif in this family is
DE[VILW]H.
Length = 803
Score = 27.5 bits (62), Expect = 1.1
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAG 46
G + + T S +G+D V V+ G P + Q +GR+
Sbjct: 299 AGRLRAVVCTSSLDLGVDFGPVDLVIQIGSPKGVARLLQRAGRSN 343
>gnl|CDD|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.
Length = 681
Score = 27.4 bits (62), Expect = 1.4
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 43 GRAGRDGLQSYC-RIYHSEHSKKSLE 67
GR GR QSYC +Y S+ + E
Sbjct: 571 GRVGRGAAQSYCVLLYKDPLSETARE 596
>gnl|CDD|179355 PRK01964, PRK01964, 4-oxalocrotonate tautomerase; Provisional.
Length = 64
Score = 25.9 bits (57), Expect = 1.5
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 5 INVITATISFGMGIDRQNVRFVV------HWGM 31
I +T IS + + ++ VR +V HWG+
Sbjct: 21 IREVTEAISATLDVPKERVRVIVNEVPSSHWGV 53
>gnl|CDD|233069 TIGR00643, recG, ATP-dependent DNA helicase RecG. [DNA metabolism,
DNA replication, recombination, and repair].
Length = 630
Score = 27.3 bits (61), Expect = 1.5
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 39 YQESGRAGRDGLQSYCRIYH----SEHSKKSLEYVIKTDTSTKREQLELK 84
+Q GR GR QSYC + + SE +KK L + T + +L+
Sbjct: 544 HQLRGRVGRGDHQSYCLLVYKNPKSESAKKRLRVMADTLDGFVIAEEDLE 593
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 27.0 bits (60), Expect = 1.7
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 2 RGEINVITATISFGMGID--RQNVRF--VVHWG----MPSSIPAYYQESGRAGRDGL 50
G + V+ AT +F +GI+ + V F + + S Y Q SGRAGR GL
Sbjct: 468 EGLVKVVFATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGL 524
>gnl|CDD|224121 COG1200, RecG, RecG-like helicase [DNA replication, recombination,
and repair / Transcription].
Length = 677
Score = 27.2 bits (61), Expect = 1.7
Identities = 9/12 (75%), Positives = 9/12 (75%)
Query: 43 GRAGRDGLQSYC 54
GR GR LQSYC
Sbjct: 573 GRVGRGDLQSYC 584
>gnl|CDD|235240 PRK04173, PRK04173, glycyl-tRNA synthetase; Provisional.
Length = 456
Score = 26.6 bits (60), Expect = 2.1
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 58 HSEHSKKSLEYVIKTDTSTK 77
HS+HS + L Y T K
Sbjct: 298 HSKHSGEDLSYFDDETTGEK 317
>gnl|CDD|235514 PRK05580, PRK05580, primosome assembly protein PriA; Validated.
Length = 679
Score = 26.3 bits (59), Expect = 3.5
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 12/42 (28%)
Query: 38 YYQESGRAGRDG------LQSYCRIYHSEHSKKSLEYVIKTD 73
Q +GRAGR +Q+ YH EH ++ ++ D
Sbjct: 526 LTQVAGRAGRAEKPGEVLIQT----YHPEHP--VIQALLAQD 561
>gnl|CDD|234872 PRK00950, PRK00950, histidinol-phosphate aminotransferase;
Validated.
Length = 361
Score = 25.7 bits (57), Expect = 4.8
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 7/33 (21%)
Query: 60 EHSKKSLEYVIKTDTSTKREQL--ELKFKNYLS 90
E+ +KS+E+ IK+ RE L EL FK Y S
Sbjct: 270 EYIEKSIEHGIKS-----REYLYNELPFKVYPS 297
>gnl|CDD|240547 cd13142, MATE_like_12, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 444
Score = 25.2 bits (56), Expect = 7.5
Identities = 9/30 (30%), Positives = 17/30 (56%), Gaps = 4/30 (13%)
Query: 16 MGIDRQNVRFVVHWGMPSSIPAYYQESGRA 45
+ D + ++ + G+PSSI ++S RA
Sbjct: 229 LKPDWEWLKKIFRIGLPSSI----EQSARA 254
>gnl|CDD|215170 PLN02301, PLN02301, pectinesterase/pectinesterase inhibitor.
Length = 548
Score = 25.2 bits (55), Expect = 8.2
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTSTKREQLEL 83
LQ+ C H + S +++ I T+T K +++L
Sbjct: 53 LQTLCDRAHDQDSCQAMVSEIATNTVMKLNRVDL 86
>gnl|CDD|240245 PTZ00050, PTZ00050, 3-oxoacyl-acyl carrier protein synthase;
Provisional.
Length = 421
Score = 25.0 bits (55), Expect = 8.6
Identities = 4/25 (16%), Positives = 9/25 (36%)
Query: 48 DGLQSYCRIYHSEHSKKSLEYVIKT 72
+ H +S++ V+ T
Sbjct: 381 AECDLNLVQGKTAHPLQSIDAVLST 405
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.133 0.395
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,914,785
Number of extensions: 383886
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 387
Number of HSP's successfully gapped: 49
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
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: 53 (24.1 bits)