RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11415
(70 letters)
>gnl|CDD|177802 PLN00221, PLN00221, tubulin alpha chain; Provisional.
Length = 450
Score = 167 bits (425), Expect = 2e-52
Identities = 61/67 (91%), Positives = 65/67 (97%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
M KCDPRHGKYMACC++YRGDVVPKDVN+A+ATIKTKRTIQFVDWCPTGFK GINYQPPT
Sbjct: 302 MAKCDPRHGKYMACCLMYRGDVVPKDVNAAVATIKTKRTIQFVDWCPTGFKCGINYQPPT 361
Query: 61 VVPGGDL 67
VVPGGDL
Sbjct: 362 VVPGGDL 368
>gnl|CDD|100015 cd02186, alpha_tubulin, The tubulin superfamily includes five
distinct families, the alpha-, beta-, gamma-, delta-,
and epsilon-tubulins and a sixth family (zeta-tubulin)
which is present only in kinetoplastid protozoa. The
alpha- and beta-tubulins are the major components of
microtubules, while gamma-tubulin plays a major role in
the nucleation of microtubule assembly. The delta- and
epsilon-tubulins are widespread but unlike the alpha,
beta, and gamma-tubulins they are not ubiquitous among
eukaryotes. The alpha/beta-tubulin heterodimer is the
structural subunit of microtubules. The alpha- and
beta-tubulins share 40% amino-acid sequence identity,
exist in several isotype forms, and undergo a variety of
posttranslational modifications. The structures of
alpha- and beta-tubulin are basically identical: each
monomer is formed by a core of two beta-sheets
surrounded by alpha-helices. The monomer structure is
very compact, but can be divided into three regions
based on function: the amino-terminal nucleotide-binding
region, an intermediate taxol-binding region and the
carboxy-terminal region which probably constitutes the
binding surface for motor proteins.
Length = 434
Score = 166 bits (423), Expect = 4e-52
Identities = 64/67 (95%), Positives = 67/67 (100%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
MVKCDPRHGKYMACC+LYRGDVVPKDVN+A+ATIKTKRTIQFVDWCPTGFKVGINYQPPT
Sbjct: 301 MVKCDPRHGKYMACCLLYRGDVVPKDVNAAVATIKTKRTIQFVDWCPTGFKVGINYQPPT 360
Query: 61 VVPGGDL 67
VVPGGDL
Sbjct: 361 VVPGGDL 367
>gnl|CDD|185562 PTZ00335, PTZ00335, tubulin alpha chain; Provisional.
Length = 448
Score = 165 bits (420), Expect = 2e-51
Identities = 62/67 (92%), Positives = 65/67 (97%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
M KCDPRHGKYMACC++YRGDVVPKDVN+AIATIKTKRTIQFVDWCPTGFK GINYQPPT
Sbjct: 302 MAKCDPRHGKYMACCLMYRGDVVPKDVNAAIATIKTKRTIQFVDWCPTGFKCGINYQPPT 361
Query: 61 VVPGGDL 67
VVPGGDL
Sbjct: 362 VVPGGDL 368
>gnl|CDD|217812 pfam03953, Tubulin_C, Tubulin C-terminal domain. This family
includes the tubulin alpha, beta and gamma chains.
Members of this family are involved in polymer
formation. Tubulins are GTPases. FtsZ can polymerise
into tubes, sheets, and rings in vitro and is ubiquitous
in eubacteria and archaea. Tubulin is the major
component of microtubules. (The FtsZ GTPases have been
split into their won family).
Length = 126
Score = 124 bits (313), Expect = 8e-39
Identities = 35/67 (52%), Positives = 45/67 (67%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
MV CDPRHGKY++C +L RGDV PK+V+ AI I+ K + FV+W P KV I PP
Sbjct: 40 MVACDPRHGKYLSCALLIRGDVSPKEVHKAIQRIQEKNSANFVEWIPNSIKVAICDVPPY 99
Query: 61 VVPGGDL 67
+PG D+
Sbjct: 100 GLPGSDV 106
>gnl|CDD|227356 COG5023, COG5023, Tubulin [Cytoskeleton].
Length = 443
Score = 109 bits (273), Expect = 3e-30
Identities = 38/59 (64%), Positives = 49/59 (83%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPP 59
MV CDPR G+YMA C+L+RGDV P+DV+ A+ +++KRTIQFV+WCPTGFKV I +PP
Sbjct: 300 MVSCDPRKGRYMAVCLLFRGDVDPRDVSRAVTRVQSKRTIQFVEWCPTGFKVAICKRPP 358
>gnl|CDD|100014 cd00286, Tubulin_FtsZ, Tubulin/FtsZ: Family includes tubulin
alpha-, beta-, gamma-, delta-, and epsilon-tubulins as
well as FtsZ, all of which are involved in polymer
formation. Tubulin is the major component of
microtubules, but also exists as a heterodimer and as a
curved oligomer. Microtubules exist in all eukaryotic
cells and are responsible for many functions, including
cellular transport, cell motility, and mitosis. FtsZ
forms a ring-shaped septum at the site of bacterial cell
division, which is required for constriction of cell
membrane and cell envelope to yield two daughter cells.
FtsZ can polymerize into tubes, sheets, and rings in
vitro and is ubiquitous in eubacteria, archaea, and
chloroplasts.
Length = 328
Score = 76.7 bits (189), Expect = 1e-18
Identities = 25/61 (40%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
MV CDP HG Y+A +L RG V P +V IA + + + W P G KVG++ PP
Sbjct: 258 MVVCDPTHGGYIAALLLVRGPVSPSEVREGIARVAPRT--SHLSWSPPGIKVGVSPTPPA 315
Query: 61 V 61
Sbjct: 316 S 316
>gnl|CDD|100023 cd06059, Tubulin, The tubulin superfamily includes five distinct
families, the alpha-, beta-, gamma-, delta-, and
epsilon-tubulins and a sixth family (zeta-tubulin) which
is present only in kinetoplastid protozoa. The alpha-
and beta-tubulins are the major components of
microtubules, while gamma-tubulin plays a major role in
the nucleation of microtubule assembly. The delta- and
epsilon-tubulins are widespread but unlike the alpha,
beta, and gamma-tubulins they are not ubiquitous among
eukaryotes. The alpha/beta-tubulin heterodimer is the
structural subunit of microtubules. The alpha- and
beta-tubulins share 40% amino-acid sequence identity,
exist in several isotype forms, and undergo a variety of
posttranslational modifications. The structures of
alpha- and beta-tubulin are basically identical: each
monomer is formed by a core of two beta-sheets
surrounded by alpha-helices. The monomer structure is
very compact, but can be divided into three regions
based on function: the amino-terminal nucleotide-binding
region, an intermediate taxol-binding region and the
carboxy-terminal region which probably constitutes the
binding surface for motor proteins. Also included in
this group is the mitochondrial Misato/DML1 protein
family, involved in mitochondrial fusion and in
mitochondrial distribution and morphology.
Length = 382
Score = 67.3 bits (165), Expect = 3e-15
Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPP 59
CDP G+Y+A +++RGDV ++ AI +K K IQ W P GFKV +PP
Sbjct: 259 FFSCDPTKGRYLAAALIFRGDVFQSEIQEAINKLKNKLNIQ--SWIPDGFKVSNCKKPP 315
>gnl|CDD|100016 cd02187, beta_tubulin, The tubulin superfamily includes five
distinct families, the alpha-, beta-, gamma-, delta-,
and epsilon-tubulins and a sixth family (zeta-tubulin)
which is present only in kinetoplastid protozoa. The
alpha- and beta-tubulins are the major components of
microtubules, while gamma-tubulin plays a major role in
the nucleation of microtubule assembly. The delta- and
epsilon-tubulins are widespread but unlike the alpha,
beta, and gamma-tubulins they are not ubiquitous among
eukaryotes. The alpha/beta-tubulin heterodimer is the
structural subunit of microtubules. The alpha- and
beta-tubulins share 40% amino-acid sequence identity,
exist in several isotype forms, and undergo a variety of
posttranslational modifications. The structures of
alpha- and beta-tubulin are basically identical: each
monomer is formed by a core of two beta-sheets
surrounded by alpha-helices. The monomer structure is
very compact, but can be divided into three regions
based on function: the amino-terminal nucleotide-binding
region, an intermediate taxol-binding region and the
carboxy-terminal region which probably constitutes the
binding surface for motor proteins.
Length = 425
Score = 59.2 bits (144), Expect = 3e-12
Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
M CDPRHG+Y+ ++RG V K+V+ + ++ K + FV+W P K + PP
Sbjct: 299 MAACDPRHGRYLTAAAIFRGRVSMKEVDEQMLNVQNKNSSYFVEWIPNNVKTAVCDIPPR 358
>gnl|CDD|240395 PTZ00387, PTZ00387, epsilon tubulin; Provisional.
Length = 465
Score = 57.8 bits (140), Expect = 8e-12
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 2/59 (3%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPP 59
MV P GKY+A ++ RG DV I + K + + W GFK G+ P
Sbjct: 327 MVAATPEAGKYLATALIVRGPQNVSDVTRNIL--RLKEQLNMIYWNEDGFKTGLCNVSP 383
>gnl|CDD|100019 cd02190, epsilon_tubulin, The tubulin superfamily includes five
distinct families, the alpha-, beta-, gamma-, delta-,
and epsilon-tubulins and a sixth family (zeta-tubulin)
which is present only in kinetoplastid protozoa. The
epsilon-tubulins which are widespread but not ubiquitous
among eukaryotes play a role in basal body/centriole
morphogenesis.
Length = 379
Score = 57.7 bits (140), Expect = 8e-12
Identities = 23/59 (38%), Positives = 37/59 (62%), Gaps = 2/59 (3%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPP 59
+++ DP+HG Y+AC +L RG+V D+ I +K K ++FV W G+K+G+ PP
Sbjct: 256 LIRADPKHGLYLACALLVRGNVSVSDLRRNIERLKPK--LKFVKWNQEGWKIGLCSVPP 312
>gnl|CDD|215107 PLN00220, PLN00220, tubulin beta chain; Provisional.
Length = 447
Score = 56.8 bits (137), Expect = 2e-11
Identities = 19/60 (31%), Positives = 32/60 (53%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
M DPRHG+Y+ ++RG + K+V+ + ++ K + FV+W P K + PP
Sbjct: 300 MCAADPRHGRYLTASAMFRGKMSTKEVDEQMINVQNKNSSYFVEWIPNNVKSSVCDIPPK 359
>gnl|CDD|240228 PTZ00010, PTZ00010, tubulin beta chain; Provisional.
Length = 445
Score = 52.5 bits (126), Expect = 7e-10
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPT 60
M DPRHG+Y+ L+RG + K+V+ + ++ K + FV+W P K + PP
Sbjct: 300 MCAADPRHGRYLTASALFRGRMSTKEVDEQMLNVQNKNSSYFVEWIPNNIKSSVCDIPPK 359
Query: 61 VVP 63
+
Sbjct: 360 GLK 362
>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 = 44.8 bits (107), Expect = 8e-08
Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 8/55 (14%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRT-IQFVDWCP-TGFKVG 53
M + D+ K+VN A+ I+ K F+ W P ++G
Sbjct: 50 MGAKGVLV--NITGGP----DLTLKEVNEAMERIREKADPDAFIIWGPVIDEELG 98
>gnl|CDD|100017 cd02188, gamma_tubulin, Gamma-tubulin is a ubiquitous
phylogenetically conserved member of tubulin
superfamily. Gamma is a low abundance protein present
within the cells in both various types of
microtubule-organizing centers and cytoplasmic protein
complexes. Gamma-tubulin recruits the
alpha/beta-tubulin dimers that form the minus ends of
microtubules and is thought to be involved in
microtubule nucleation and capping.
Length = 431
Score = 44.9 bits (107), Expect = 3e-07
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 1 MVKCDP-RHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPP 59
MV ++G Y++ + +G+V P V+ ++ I+ +R F+ W P +V ++ + P
Sbjct: 302 MVSTATRKNGCYISILNIIQGEVDPTQVHKSLQRIRERRLANFIPWGPASIQVALSKKSP 361
Query: 60 TVVPG 64
V
Sbjct: 362 YVPTA 366
>gnl|CDD|215108 PLN00222, PLN00222, tubulin gamma chain; Provisional.
Length = 454
Score = 37.9 bits (88), Expect = 1e-04
Identities = 13/57 (22%), Positives = 31/57 (54%)
Query: 5 DPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKVGINYQPPTV 61
+ KY++ + +G+V P V+ ++ I+ ++ F++W P +V ++ + P V
Sbjct: 313 EASQAKYISILNIIQGEVDPTQVHKSLQRIRERKLANFIEWGPASIQVALSRKSPYV 369
>gnl|CDD|235017 PRK02255, PRK02255, putrescine carbamoyltransferase; Provisional.
Length = 338
Score = 26.9 bits (60), Expect = 0.82
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 1 MVKCDPRHGKYMACCMLYRGDVVPKDVNSAIATIKTKRTIQFVDWCPTGFKV 52
M++ P K C +++ GD V ++ I TK + FV + P G+++
Sbjct: 142 MIEHLPEGKKLEDCKVVFVGDAT--QVCVSLMFIATKMGMDFVHFGPKGYQL 191
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
0.326 0.143 0.485
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: 3,471,989
Number of extensions: 238144
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 249
Number of HSP's successfully gapped: 16
Length of query: 70
Length of database: 10,937,602
Length adjustment: 40
Effective length of query: 30
Effective length of database: 9,163,442
Effective search space: 274903260
Effective search space used: 274903260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.0 bits)