RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy593
(70 letters)
>gnl|CDD|240228 PTZ00010, PTZ00010, tubulin beta chain; Provisional.
Length = 445
Score = 91.0 bits (226), Expect = 2e-23
Identities = 33/55 (60%), Positives = 42/55 (76%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDE 55
MFRRKAFLHWYT EGMDE EF EA +N+ DL+ EYQQYQ+A++E+ E ++
Sbjct: 388 MFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATVEEEGEFDEEEEA 442
>gnl|CDD|215107 PLN00220, PLN00220, tubulin beta chain; Provisional.
Length = 447
Score = 88.3 bits (219), Expect = 1e-22
Identities = 33/59 (55%), Positives = 43/59 (72%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDEKGDH 59
MFRRKAFLHWYT EGMDE EF EA +N+ DL+ EYQQYQ+A+ ++ E ++E+
Sbjct: 388 MFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATADEEGEYEDEEEEEEYE 446
>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 = 84.6 bits (210), Expect = 2e-21
Identities = 30/39 (76%), Positives = 33/39 (84%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQ 39
MFRRKAFLHWYT EGMDE EF EA +N+ DL+ EYQQYQ
Sbjct: 387 MFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQ 425
>gnl|CDD|227356 COG5023, COG5023, Tubulin [Cytoskeleton].
Length = 443
Score = 74.3 bits (183), Expect = 1e-17
Identities = 24/48 (50%), Positives = 32/48 (66%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVE 48
MF+++AFLHWY EGM+E EF EA +V DL EY+ ++ S D E
Sbjct: 391 MFKKRAFLHWYVGEGMEEGEFSEAREDVADLEEEYEAAEQDSYLDDEE 438
>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 = 66.5 bits (163), Expect = 7e-15
Identities = 23/37 (62%), Positives = 30/37 (81%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQ 37
+++RKAFLHWY EGMDE EF EA +++EDLI YQ+
Sbjct: 346 LYKRKAFLHWYLGEGMDEMEFTEAESSLEDLIQSYQE 382
>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 = 50.4 bits (121), Expect = 3e-09
Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 3/41 (7%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEA 41
M+ ++AF+HWY EGM+E EF EA EDL + Y+E
Sbjct: 397 MYSKRAFVHWYVGEGMEEGEFSEA---REDLAALEKDYEEV 434
>gnl|CDD|185562 PTZ00335, PTZ00335, tubulin alpha chain; Provisional.
Length = 448
Score = 50.1 bits (120), Expect = 5e-09
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 7/58 (12%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDEKGD 58
M+ ++AF+HWY EGM+E EF EA EDL + Y+E E A + E+
Sbjct: 398 MYAKRAFVHWYVGEGMEEGEFSEAR---EDLAALEKDYEEVGA----ESADEEGEEDV 448
>gnl|CDD|100018 cd02189, delta_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. Delta-tubulin plays an essential role in
forming the triplet microtubules of centrioles and basal
bodies.
Length = 446
Score = 45.4 bits (108), Expect = 2e-07
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQ 36
MF A+LH Y G++E +F +A A +E +I Y+
Sbjct: 410 MFASGAYLHQYEKYGLEEEDFLDAFATLEQIIASYK 445
>gnl|CDD|177802 PLN00221, PLN00221, tubulin alpha chain; Provisional.
Length = 450
Score = 42.9 bits (101), Expect = 2e-06
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDE 55
M+ ++AF+HWY EGM+E EF EA EDL + Y+E E +E
Sbjct: 398 MYAKRAFVHWYVGEGMEEGEFSEAR---EDLAALEKDYEEVGAESAEGEGDEGEE 449
>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 = 41.5 bits (98), Expect = 5e-06
Identities = 16/37 (43%), Positives = 25/37 (67%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQ 37
+++RKA LH YT GM++ +F EA ++ +LI EY
Sbjct: 342 LYKRKAHLHHYTQVGMEQGDFTEALESISNLIDEYDY 378
>gnl|CDD|240395 PTZ00387, PTZ00387, epsilon tubulin; Provisional.
Length = 465
Score = 35.1 bits (81), Expect = 0.001
Identities = 13/41 (31%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEA 41
+++RK+ +H YT E +++ F E +++LI +Y Q A
Sbjct: 413 LYKRKSHVHHYT-EYLEQAYFDETLETIQNLIDDYAYLQTA 452
>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 = 34.2 bits (79), Expect = 0.002
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 1 MFRRKAFLHWYTVEGMDEF---EFHEAGANVEDLICEY 35
+ +R+AFL Y E M EF E+ V+ LI EY
Sbjct: 394 LRKRRAFLDNYRKEDMFSDNLDEFDESREVVQSLIEEY 431
>gnl|CDD|130997 TIGR01942, pcnB, poly(A) polymerase. This model describes the pcnB
family of poly(A) polymerases (also known as plasmid
copy number protein). These enzymes sequentially add
adenosine nucleotides to the 3' end of RNAs, targeting
them for degradation by the cell. This was originally
described for anti-sense RNAs, but was later
demonstrated for mRNAs as well. Members of this family
are as yet limited to the gamma- and
beta-proteobacteria, with putative members in the
Chlamydiacae and spirochetes. This family has homology
to tRNA nucleotidyltransferase (cca).
Length = 410
Score = 28.2 bits (63), Expect = 0.28
Identities = 15/61 (24%), Positives = 21/61 (34%), Gaps = 1/61 (1%)
Query: 1 MFRRKAFLHWYTVEGMDEFEFHEAGANVEDLICEY-QQYQEASIEDTVEIATSDDEKGDH 59
M RK H D E ++ E+ YQ AS E+ E+ S +
Sbjct: 347 MRARKLLGHARFRAAYDLLLLREVCGRENAVLGEWWTPYQLASEEERTEMTRSAARHEGN 406
Query: 60 R 60
R
Sbjct: 407 R 407
>gnl|CDD|236586 PRK09605, PRK09605, bifunctional UGMP family
protein/serine/threonine protein kinase; Validated.
Length = 535
Score = 27.2 bits (61), Expect = 0.66
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 11/38 (28%)
Query: 11 YTVEGMDEFEF----------HEAGANVEDLICEYQQY 38
Y V+GMD F F ++AG +ED+ Q+
Sbjct: 192 YVVKGMD-FSFSGLLTAAKRAYDAGEPLEDVCYSLQET 228
>gnl|CDD|234992 PRK01919, tatB, sec-independent translocase; Provisional.
Length = 169
Score = 25.3 bits (56), Expect = 2.4
Identities = 10/49 (20%), Positives = 17/49 (34%), Gaps = 5/49 (10%)
Query: 16 MDEF-----EFHEAGANVEDLICEYQQYQEASIEDTVEIATSDDEKGDH 59
+DE +F A +VE+ I + E+ + D A
Sbjct: 56 LDELRKMKTDFESAARDVENTIHDNLSEHESDLNDAWNSAVGSLGSAAA 104
>gnl|CDD|223144 COG0066, LeuD, 3-isopropylmalate dehydratase small subunit [Amino
acid transport and metabolism].
Length = 191
Score = 24.1 bits (53), Expect = 7.7
Identities = 10/39 (25%), Positives = 14/39 (35%)
Query: 5 KAFLHWYTVEGMDEFEFHEAGANVEDLICEYQQYQEASI 43
K FL T G+ + F + D + YQ I
Sbjct: 27 KRFLKTITRTGLGKHLFEDWRYLDPDFVLNVPPYQGGDI 65
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
0.315 0.132 0.392
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,560,862
Number of extensions: 259371
Number of successful extensions: 248
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 19
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: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)