RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5779
(83 letters)
>gnl|CDD|214619 smart00325, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases. Guanine nucleotide
exchange factor for Rho/Rac/Cdc42-like GTPases Also
called Dbl-homologous (DH) domain. It appears that PH
domains invariably occur C-terminal to RhoGEF/DH
domains. Improved coverage.
Length = 180
Score = 56.2 bits (136), Expect = 2e-11
Identities = 19/66 (28%), Positives = 37/66 (56%), Gaps = 1/66 (1%)
Query: 14 FELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCSERLLAALE 73
EL+ +E +Y + L +L + F+ PL ++ +LS N+ + LFGN+ + + L LE
Sbjct: 3 KELLQTERNYVRDLKLLVEVFLK-PLKKELKLLSPNELETLFGNIEEIYEFHRDFLDELE 61
Query: 74 QCWQDS 79
+ ++
Sbjct: 62 ERIEEW 67
>gnl|CDD|216028 pfam00621, RhoGEF, RhoGEF domain. Guanine nucleotide exchange
factor for Rho/Rac/Cdc42-like GTPases Also called
Dbl-homologous (DH) domain. It appears that pfam00169
domains invariably occur C-terminal to RhoGEF/DH
domains.
Length = 179
Score = 54.9 bits (133), Expect = 5e-11
Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 14 FELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCSERLLAALE 73
EL+ +E SY + L +L + F+ L + ILS+ + K +F N+ + + + L LE
Sbjct: 3 QELLQTERSYVRDLKILVEVFLKP--LRESPILSEEEIKTIFSNIEEILELHQEFLEELE 60
Query: 74 QCWQDSILLQ 83
+ ++ +Q
Sbjct: 61 ERLEEWPDIQ 70
>gnl|CDD|238091 cd00160, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous
(DH) domain. It appears that PH domains invariably
occur C-terminal to RhoGEF/DH domains.
Length = 181
Score = 54.2 bits (131), Expect = 9e-11
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 9 LQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCSERL 68
QE EL+ +E +Y + L +L + F+ PL ++ LS + + LFGN+ + +
Sbjct: 1 RQEVIKELLQTERNYVRDLKLLVEVFLK-PLDKELLPLSPEEVELLFGNIEEIYEFHRIF 59
Query: 69 LAALEQC 75
L +LE+
Sbjct: 60 LKSLEER 66
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 37.9 bits (88), Expect = 1e-04
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 6/77 (7%)
Query: 2 LDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDR----KHLFGN 57
L E K QEA +E+I +E + K L L +I L++ NI+ +N R KH+F N
Sbjct: 478 LPKQEIKRQEAIYEVIYTERDFVKDLEYLRDTWIK--PLEESNIIPENARRNFIKHVFAN 535
Query: 58 VTAVRKCSERLLAALEQ 74
+ + + +LL AL
Sbjct: 536 INEIYAVNSKLLKALTN 552
>gnl|CDD|236468 PRK09330, PRK09330, cell division protein FtsZ; Validated.
Length = 384
Score = 28.2 bits (64), Expect = 0.35
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 35 IASPLLDDVNILSKNDRKHLFGNVTA 60
I+SPLL+DV+I + L N+T
Sbjct: 247 ISSPLLEDVDI--SGAKGVLV-NITG 269
>gnl|CDD|214868 smart00865, Tubulin_C, Tubulin/FtsZ family, C-terminal domain.
This domain is found in the tubulin alpha, beta and
gamma chains, as well as the bacterial FtsZ family of
proteins. These proteins are GTPases and are involved
in polymer formation. Tubulin is the major component of
microtubules, while FtsZ is the polymer-forming protein
of bacterial cell division, it is part of a ring in the
middle of the dividing cell that is required for
constriction of cell membrane and cell envelope to
yield two daughter cells. FtsZ can polymerise into
tubes, sheets, and rings in vitro and is ubiquitous in
bacteria and archaea. This is the C-terminal domain.
Length = 120
Score = 27.5 bits (62), Expect = 0.53
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 24 FKSLTVLEKHFIASPLLDDVNILSKND 50
++L E I+SPLL+D NI+
Sbjct: 29 NRALEAAEL-AISSPLLEDSNIMGAKG 54
>gnl|CDD|183514 PRK12414, PRK12414, putative aminotransferase; Provisional.
Length = 384
Score = 25.9 bits (57), Expect = 2.9
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 7 RKLQEAKFELITSEASYF 24
R+L ++FEL+ SE S+F
Sbjct: 302 RELAGSRFELLPSEGSFF 319
>gnl|CDD|214368 CHL00117, rpoC2, RNA polymerase beta'' subunit; Reviewed.
Length = 1364
Score = 25.3 bits (56), Expect = 4.6
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 39 LLDDVNILSKN-DRKHLFGNVTAVRK 63
L+ D S ++ + +GNV AV K
Sbjct: 71 LVQDAEQQSLILEKHYHYGNVHAVEK 96
>gnl|CDD|132453 TIGR03412, iscX_yfhJ, FeS assembly protein IscX. Members of this
protein family are YfhJ, a protein of the ISC system
for iron-sulfur cluster assembly. Other genes in the
system include iscSUA, hscBA, and fdx [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 63
Score = 23.8 bits (52), Expect = 5.8
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 63 KCSERLLAALEQCWQD 78
+C+E++L A++ W D
Sbjct: 45 RCNEKILEAIQMAWID 60
>gnl|CDD|233858 TIGR02414, pepN_proteo, aminopeptidase N, Escherichia coli type.
The M1 family of zinc metallopeptidases contains a
number of distinct, well-separated clades of proteins
with aminopeptidase activity. Several are designated
aminopeptidase N, EC 3.4.11.2, after the Escherichia
coli enzyme, suggesting a similar activity profile (see
SP|P04825 for a description of catalytic activity). This
family consists of all aminopeptidases closely related
to E. coli PepN and presumed to have similar (not
identical) function. Nearly all are found in
Proteobacteria, but members are found also in
Cyanobacteria, plants, and apicomplexan parasites. This
family differs greatly in sequence from the family of
aminopeptidases typified by Streptomyces lividans PepN
(TIGR02412), from the membrane bound aminopeptidase N
family in animals, etc [Protein fate, Degradation of
proteins, peptides, and glycopeptides].
Length = 863
Score = 24.6 bits (54), Expect = 8.2
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 10/81 (12%)
Query: 3 DAGERKLQEAKFELITSEASYFKSLTVLEKHFI-ASPLLDDVNILSKNDRKHLFGNVTAV 61
AG R L+ A + S A + + + F A + D + LS V
Sbjct: 668 AAGRRALRNACLSYL-SAADDAEIRNLALEQFKSADNMTDRLAALS--------ALVHFE 718
Query: 62 RKCSERLLAALEQCWQDSILL 82
ER LAA Q W+D L+
Sbjct: 719 SDFRERALAAFYQKWKDDPLV 739
>gnl|CDD|223402 COG0325, COG0325, Predicted enzyme with a TIM-barrel fold
[General function prediction only].
Length = 228
Score = 24.5 bits (54), Expect = 8.6
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 5/31 (16%)
Query: 5 GERKLQEAKFELITSEASYFKSLTVLEKHFI 35
GE ++QEA + K L +E HFI
Sbjct: 54 GENRVQEAL-----DKIEALKDLPDIEWHFI 79
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
0.319 0.133 0.374
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,053,720
Number of extensions: 319546
Number of successful extensions: 290
Number of sequences better than 10.0: 1
Number of HSP's gapped: 287
Number of HSP's successfully gapped: 11
Length of query: 83
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 31
Effective length of database: 8,631,194
Effective search space: 267567014
Effective search space used: 267567014
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.0 bits)