RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9380
(195 letters)
>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 = 407 bits (1048), Expect = e-144
Identities = 162/173 (93%), Positives = 168/173 (97%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVP 61
REIVHIQAGQCGNQIGAKFWE+ISDEHG+DPTG Y GDSDLQLERINVY+NEASG KYVP
Sbjct: 1 REIVHIQAGQCGNQIGAKFWEVISDEHGLDPTGTYKGDSDLQLERINVYFNEASGGKYVP 60
Query: 62 RAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVR 121
RAILVDLEPGTMDSVRSGPFGQ+FRPDNFVFGQSGAGNNWAKGHYTEGAEL+DSVLDVVR
Sbjct: 61 RAILVDLEPGTMDSVRSGPFGQLFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVVR 120
Query: 122 KEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPK 174
KEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIM T+SV PSPK
Sbjct: 121 KEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMATFSVFPSPK 173
>gnl|CDD|215107 PLN00220, PLN00220, tubulin beta chain; Provisional.
Length = 447
Score = 397 bits (1022), Expect = e-140
Identities = 155/174 (89%), Positives = 167/174 (95%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYV 60
MREI+HIQ GQCGNQIGAKFWE++ DEHGIDPTG YHGDSDLQLERINVYYNEASG +YV
Sbjct: 1 MREILHIQGGQCGNQIGAKFWEVVCDEHGIDPTGTYHGDSDLQLERINVYYNEASGGRYV 60
Query: 61 PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV 120
PRA+L+DLEPGTMDSVRSGP+GQIFRPDNFVFGQSGAGNNWAKGHYTEGAEL+DSVLDVV
Sbjct: 61 PRAVLMDLEPGTMDSVRSGPYGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELIDSVLDVV 120
Query: 121 RKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPK 174
RKEAE+CDCLQGFQ+ HSLGGGTGSGMGTLLISKIREEYPDR+M T+SV PSPK
Sbjct: 121 RKEAENCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPK 174
Score = 28.6 bits (64), Expect = 2.4
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 174 KEATADEDAEFDEEQEAEVDEN 195
++ATADE+ E+++E+E E E
Sbjct: 426 QDATADEEGEYEDEEEEEEYEE 447
>gnl|CDD|240228 PTZ00010, PTZ00010, tubulin beta chain; Provisional.
Length = 445
Score = 391 bits (1007), Expect = e-138
Identities = 155/174 (89%), Positives = 169/174 (97%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYV 60
MREIVHIQAGQCGNQIG+KFWE+ISDEHGIDPTG Y GDSDLQLERINVYYNEA+G +YV
Sbjct: 1 MREIVHIQAGQCGNQIGSKFWEVISDEHGIDPTGTYQGDSDLQLERINVYYNEATGGRYV 60
Query: 61 PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV 120
PRA+L+DLEPGTMDSVR+GP+GQ+FRPDNF+FGQSGAGNNWAKGHYTEGAEL+DSVLDVV
Sbjct: 61 PRAVLMDLEPGTMDSVRAGPYGQLFRPDNFIFGQSGAGNNWAKGHYTEGAELIDSVLDVV 120
Query: 121 RKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPK 174
RKEAESCDCLQGFQ+THSLGGGTGSGMGTLLISK+REEYPDRIM T+SV PSPK
Sbjct: 121 RKEAESCDCLQGFQITHSLGGGTGSGMGTLLISKLREEYPDRIMMTFSVFPSPK 174
>gnl|CDD|227356 COG5023, COG5023, Tubulin [Cytoskeleton].
Length = 443
Score = 321 bits (824), Expect = e-110
Identities = 105/178 (58%), Positives = 136/178 (76%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYV 60
MREI+ +Q GQCGNQIG FWE + EHGI P G SD ER +V++ EAS K+V
Sbjct: 1 MREIITLQVGQCGNQIGNAFWETLCLEHGIGPDGTLLDSSDEGDERFDVFFYEASDGKFV 60
Query: 61 PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVV 120
PRAILVDLEPG +D VR+GP+G +F P+N +FG+ GAGNNWA+GHYT G E++D V+D++
Sbjct: 61 PRAILVDLEPGVIDQVRNGPYGSLFHPENIIFGKEGAGNNWARGHYTVGKEIIDDVMDMI 120
Query: 121 RKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEATA 178
R+EA+ CD LQGF L HSLGGGTGSG+G+LL+ ++REEYP +I T+SV P+PK +
Sbjct: 121 RREADGCDGLQGFLLLHSLGGGTGSGLGSLLLERLREEYPKKIKLTFSVFPAPKVSDV 178
>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 = 209 bits (535), Expect = 1e-66
Identities = 76/178 (42%), Positives = 121/178 (67%), Gaps = 3/178 (1%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVP 61
REI+ +Q GQCGNQIG++FW+ + EHGI P G + +R +V++ +A YVP
Sbjct: 1 REIITLQVGQCGNQIGSEFWKQLCAEHGISPDGILEDFATDGGDRKDVFFYQADDEHYVP 60
Query: 62 RAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQS--GAGNNWAKGHYTEGAELVDSVLDV 119
RAIL+DLEP ++S+++ + ++ P+N + GAGNNWA G Y++G E+ + +LD+
Sbjct: 61 RAILIDLEPRVINSIQNSEYRNLYNPENIFLSKHGGGAGNNWASG-YSQGEEVQEEILDI 119
Query: 120 VRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEAT 177
+ +EA+ D L+GF L HS+ GGTGSGMG+ L+ ++ + YP +++ TYSV P+ E++
Sbjct: 120 IDREADGSDSLEGFVLCHSIAGGTGSGMGSYLLERLNDRYPKKLIQTYSVFPNQDESS 177
>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 = 196 bits (500), Expect = 6e-62
Identities = 75/173 (43%), Positives = 103/173 (59%), Gaps = 39/173 (22%)
Query: 3 EIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVPR 62
EI+ IQ GQCGNQIG KFWE+
Sbjct: 1 EIISIQIGQCGNQIGNKFWEL--------------------------------------- 21
Query: 63 AILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRK 122
ILVDL+P ++ + G ++F P+ V G+ G+GNNWA+G+YT G EL+D +LD +RK
Sbjct: 22 LILVDLDPRVINEILQGQLSKLFDPNQLVNGKEGSGNNWARGYYTIGPELIDEILDRIRK 81
Query: 123 EAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKE 175
+ E CD LQGFQ+THSLGGGTGSG+G+LL+ + +EYP ++NT+S+ PSP+
Sbjct: 82 QVEKCDSLQGFQITHSLGGGTGSGLGSLLLELLSDEYPKILINTFSIFPSPQG 134
>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 = 193 bits (492), Expect = 2e-61
Identities = 75/173 (43%), Positives = 96/173 (55%), Gaps = 39/173 (22%)
Query: 3 EIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVPR 62
EIV IQ GQ GNQIGAKFWE +
Sbjct: 1 EIVTIQLGQAGNQIGAKFWEQL-------------------------------------- 22
Query: 63 AILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRK 122
+LVD EPG +D SGP+ +F + GAGNNWA GH T G E + +LD++RK
Sbjct: 23 -VLVDTEPGVIDETLSGPYRLLFCIGQLITHGGGAGNNWAFGHETAGEEYQEEILDIIRK 81
Query: 123 EAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKE 175
EAE CD LQGF +THSLGGGTGSG+G +L ++++EYP R+ T+S++P P E
Sbjct: 82 EAEECDSLQGFFITHSLGGGTGSGLGPVLAERLKDEYPKRLKITFSILPGPDE 134
>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 = 193 bits (493), Expect = 3e-60
Identities = 78/179 (43%), Positives = 113/179 (63%), Gaps = 2/179 (1%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDS--DLQLERINVYYNEASGSKY 59
RE++ I GQ G QIG WE+ EHGI P G D + N +++E K+
Sbjct: 1 REVISIHIGQAGIQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDAFNTFFSETGSGKH 60
Query: 60 VPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDV 119
VPRA+ +DLEP +D VR+G + Q+F P+ + G+ A NN+A+GHYT G E++D VLD
Sbjct: 61 VPRAVFIDLEPTVIDEVRTGTYRQLFHPEQLISGKEDAANNFARGHYTIGKEIIDLVLDR 120
Query: 120 VRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEATA 178
+RK A++C LQGF + HS GGGTGSG G+LL+ ++ +Y + ++V PSP+ +TA
Sbjct: 121 IRKLADNCTGLQGFLIFHSFGGGTGSGFGSLLLERLSVDYGKKSKLEFTVYPSPQVSTA 179
>gnl|CDD|215710 pfam00091, Tubulin, Tubulin/FtsZ family, GTPase domain. This
family includes the tubulin alpha, beta and gamma
chains, as well as the bacterial FtsZ family of
proteins. Members of this family are involved in polymer
formation. 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 and tubulin 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.
Length = 210
Score = 182 bits (463), Expect = 2e-58
Identities = 63/172 (36%), Positives = 90/172 (52%), Gaps = 9/172 (5%)
Query: 4 IVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVPRA 63
I+ I G GN IG WE++ EHGIDP G ++INV++ E+ Y PR
Sbjct: 1 IIVIGVGGAGNNIGNALWELLCKEHGIDPDG-----MLFHADKINVFFEESGDGVYGPRF 55
Query: 64 ILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKE 123
I +D +P ++ +++G +F +N G GAGNN A G+YT E + L+ +RKE
Sbjct: 56 IAIDTDPQVLNEIKAGNK--LFIGNNLTKGLEGAGNNPAVGYYT-HKEAAEESLEEIRKE 112
Query: 124 AESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKE 175
E CD L GF +T LGGGTGSG ++ ++E Y + P E
Sbjct: 113 LEKCDGLDGFFITAGLGGGTGSGAAPVIAEILKELY-GALTVAVVTFPFTSE 163
>gnl|CDD|185562 PTZ00335, PTZ00335, tubulin alpha chain; Provisional.
Length = 448
Score = 188 bits (480), Expect = 3e-58
Identities = 76/180 (42%), Positives = 117/180 (65%), Gaps = 2/180 (1%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLE--RINVYYNEASGSK 58
MRE++ I GQ G Q+G WE+ EHGI P G D ++ +E N +++E K
Sbjct: 1 MREVISIHIGQAGIQVGNACWELFCLEHGIQPDGQMPSDKNIGVEDDAFNTFFSETGAGK 60
Query: 59 YVPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLD 118
+VPR + +DLEP +D VR+G + Q+F P+ + G+ A NN+A+GHYT G E+VD LD
Sbjct: 61 HVPRCVFLDLEPTVIDEVRTGTYRQLFHPEQLISGKEDAANNFARGHYTIGKEIVDLCLD 120
Query: 119 VVRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEATA 178
+RK A++C LQGF + H++GGGTGSG+G+LL+ ++ +Y + +++ PSP+ +TA
Sbjct: 121 RIRKLADNCTGLQGFLVFHAVGGGTGSGLGSLLLERLSVDYGKKSKLGFTIYPSPQVSTA 180
>gnl|CDD|215108 PLN00222, PLN00222, tubulin gamma chain; Provisional.
Length = 454
Score = 180 bits (458), Expect = 5e-55
Identities = 68/178 (38%), Positives = 112/178 (62%), Gaps = 3/178 (1%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVP 61
REI+ +Q GQCGNQIG +FW+ + EHGI G + +R +V++ +A Y+P
Sbjct: 3 REIITLQVGQCGNQIGMEFWKQLCLEHGISKDGILEDFATQGGDRKDVFFYQADDEHYIP 62
Query: 62 RAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQS--GAGNNWAKGHYTEGAELVDSVLDV 119
RA+L+DLEP ++ +++ + ++ +N GAGNNWA G Y +G ++ + ++D+
Sbjct: 63 RALLIDLEPRVINGIQNSEYRNLYNHENIFVSDHGGGAGNNWASG-YHQGEQVEEDIMDM 121
Query: 120 VRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEAT 177
+ +EA+ D L+GF L HS+ GGTGSGMG+ L+ + + Y +++ TYSV P+ E +
Sbjct: 122 IDREADGSDSLEGFVLCHSIAGGTGSGMGSYLLEALNDRYSKKLVQTYSVFPNQMETS 179
>gnl|CDD|177802 PLN00221, PLN00221, tubulin alpha chain; Provisional.
Length = 450
Score = 179 bits (455), Expect = 1e-54
Identities = 77/180 (42%), Positives = 115/180 (63%), Gaps = 2/180 (1%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQL--ERINVYYNEASGSK 58
MRE + I GQ G Q+G WE+ EHGI P G D + + N +++E K
Sbjct: 1 MRECISIHIGQAGIQVGNACWELYCLEHGIQPDGQMPSDKTVGGGDDAFNTFFSETGAGK 60
Query: 59 YVPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLD 118
+VPRA+ VDLEP +D VR+G + Q+F P+ + G+ A NN+A+GHYT G E+VD LD
Sbjct: 61 HVPRAVFVDLEPTVIDEVRTGTYRQLFHPEQLISGKEDAANNFARGHYTIGKEIVDLCLD 120
Query: 119 VVRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPSPKEATA 178
+RK A++C LQGF + +++GGGTGSG+G+LL+ ++ +Y + ++V PSP+ +TA
Sbjct: 121 RIRKLADNCTGLQGFLVFNAVGGGTGSGLGSLLLERLSVDYGKKSKLGFTVYPSPQVSTA 180
>gnl|CDD|240395 PTZ00387, PTZ00387, epsilon tubulin; Provisional.
Length = 465
Score = 169 bits (430), Expect = 1e-50
Identities = 72/173 (41%), Positives = 99/173 (57%), Gaps = 1/173 (0%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEH-GIDPTGAYHGDSDLQLERINVYYNEASGSKY 59
REIV +Q GQCGNQ+G +FW++ EH I+ Y D E ++ N
Sbjct: 1 PREIVTVQVGQCGNQLGHRFWDVALKEHKKINANPQYDDARDSFFENVSENVNRPGKENL 60
Query: 60 VPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDV 119
RA+LVD+E G ++ + P G +F + FV SGAGNNWA GH G + +DS+ +
Sbjct: 61 KARAVLVDMEEGVLNQILKSPLGDLFDENFFVSDVSGAGNNWAVGHMEYGDKYIDSISES 120
Query: 120 VRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPS 172
VR++ E CD LQ F L HSLGGGTGSG+GT ++ + +E+P V PS
Sbjct: 121 VRRQVEQCDSLQSFFLMHSLGGGTGSGLGTRILGMLEDEFPHVFRFCPVVFPS 173
>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 = 164 bits (417), Expect = 1e-49
Identities = 67/171 (39%), Positives = 95/171 (55%), Gaps = 30/171 (17%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVP 61
REI+ +Q GQCGNQIG +FW++ EH L+
Sbjct: 1 REIIVVQVGQCGNQIGCRFWDLALREH-------------LK-----------------A 30
Query: 62 RAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVR 121
RA+L+D+E G ++ + GP +F V SGAGNNWA G++ G + +DS+L+ +R
Sbjct: 31 RAVLIDMEEGVVNEILKGPLRDLFDETQLVTDVSGAGNNWAVGYHQYGHQYIDSILEKIR 90
Query: 122 KEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPS 172
K AE CD LQ F + HSLGGGTGSG+GT ++ + +E+P+ SV PS
Sbjct: 91 KAAEKCDSLQSFFILHSLGGGTGSGLGTYVLELLADEFPEVYRFVTSVYPS 141
>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 = 165 bits (419), Expect = 3e-49
Identities = 61/168 (36%), Positives = 98/168 (58%), Gaps = 11/168 (6%)
Query: 4 IVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYN--EASGSKYVP 61
+V +Q GQCGNQ+G + ++ ++ E + D + ER E S + +
Sbjct: 2 VVTVQLGQCGNQLGHELFDTLAKE------ASSSDDEGYKYERDAQERFFSEKSDGQPIA 55
Query: 62 RAILVDLEPGTMDSVRSGPFGQI--FRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDV 119
R++LVD+EP ++S S G + N + QSG+GNNWA G+Y G ++ + +LD+
Sbjct: 56 RSVLVDMEPKVIESTLSKSSGGTWKYDKKNVICQQSGSGNNWAYGYYVHGPQIKEDILDL 115
Query: 120 VRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDR-IMNT 166
+RKE E CD +GF + HSL GGTGSG+G+ + +R+EYP+ ++N
Sbjct: 116 IRKEVEKCDSFEGFLVLHSLAGGTGSGLGSRVTELLRDEYPESLLLNI 163
>gnl|CDD|214867 smart00864, Tubulin, Tubulin/FtsZ family, GTPase domain. This
domain is found in all tubulin chains, as well as the
bacterial FtsZ family of proteins. These proteins 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 and
tubulin are GTPases, this entry is the GTPase domain.
FtsZ can polymerise into tubes, sheets, and rings in
vitro and is ubiquitous in bacteria and archaea.
Length = 192
Score = 134 bits (339), Expect = 5e-40
Identities = 39/130 (30%), Positives = 57/130 (43%), Gaps = 13/130 (10%)
Query: 47 INVYYNEASGSKYVPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHY 106
+ P A+ VDLEPG +D VR+ Q P++ G+ AGNNW +G
Sbjct: 1 KIKVFGVG---GGGPNAVNVDLEPGVIDGVRANTDAQALNPESLASGKIQAGNNWTRGLG 57
Query: 107 T-----EGAELVDSVLDVVRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPD 161
G E + LD +R+E E D G +T +GGGTG+G ++ + EY
Sbjct: 58 AGADPEVGREAAEESLDEIREELEGAD---GVFITAGMGGGTGTGAAPVIAEIAK-EYGI 113
Query: 162 RIMNTYSVVP 171
+ P
Sbjct: 114 LTV-AVVTKP 122
>gnl|CDD|100024 cd06060, misato, Human Misato shows similarity with Tubulin/FtsZ
family of GTPases and is localized to the the outer
membrane of mitochondria. It has a role in mitochondrial
fusion and in mitochondrial distribution and morphology.
Mutations in its Drosophila homolog (misato) lead to
irregular chromosome segregation during mitosis.
Deletion of the budding yeast homolog DML1 is lethal and
unregulate expression of DML1 leads to mitochondrial
dispersion and abnormalities in cell morphology. The
Misato/DML1 protein family is conserved from yeast to
human, but its exact function is still unknown.
Length = 493
Score = 50.0 bits (120), Expect = 1e-07
Identities = 48/213 (22%), Positives = 81/213 (38%), Gaps = 44/213 (20%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYVP 61
RE++ +Q G N +G +W + G DP L R Y P
Sbjct: 1 REVLTLQLGHYANFVGTHWWNLQEANFGYDPDSPASELDHDVLYR--EGRTRQGQVTYTP 58
Query: 62 RAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNW-----AKGH----------- 105
R +L+DL+ GT+ + +++ + V N W A+ H
Sbjct: 59 RLLLLDLK-GTLGHLPEEGSLKVYNLEASV-------NVWSDYLYARLHPRSINVINQYN 110
Query: 106 ----------YTEGAEL------VDSVLDVVRKEAESCDCLQGFQLTHSLGGGTGSGMGT 149
+ +G L + D +R E CD LQGFQ+ L G SG+G
Sbjct: 111 HDGTSQPFEVFGQGESLWQDESFQEEFEDRLRFYVEECDYLQGFQVLCDLHDGF-SGVGA 169
Query: 150 LLISKIREEYPDRIMNTYSVVP-SPKEATADED 181
+ +++EY + + P P +A++D++
Sbjct: 170 KCLEHLQDEYGKASLLFPGLPPVIPPDASSDKN 202
>gnl|CDD|100022 cd02202, FtsZ_type2, FtsZ is a GTPase that is similar to the
eukaryotic tubulins and is essential for cell division
in prokaryotes. FtsZ is capable of polymerizing in a
GTP-driven process into structures similar to those
formed by tubulin. 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.
Length = 349
Score = 42.3 bits (100), Expect = 5e-05
Identities = 37/185 (20%), Positives = 63/185 (34%), Gaps = 49/185 (26%)
Query: 1 MREIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERINVYYNEASGSKYV 60
MR ++ I GQ G +I +++ SG Y
Sbjct: 1 MRVLI-IGVGQAGGRIVDALNR----------------------------HDKRSGFGYC 31
Query: 61 PRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQS-------GAGNNWAKGHYTEGAELV 113
A+ ++ + ++ P D + GQS GA E E V
Sbjct: 32 VGALAINTAKNDLKGLKHIP-----AEDRILIGQSEVKGHGVGADRELGAEVAEEDLEEV 86
Query: 114 DSVLD-VVRKEAESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTYSVVPS 172
+D +A+ + LGGGTGSG G +++K +E + + V+P+
Sbjct: 87 MRAIDDRGTSDAD------AILVIAGLGGGTGSG-GAPVLAKELKERYEEPVYALGVLPA 139
Query: 173 PKEAT 177
+E
Sbjct: 140 REEGE 144
>gnl|CDD|220832 pfam10644, Misat_Myo_SegII, Misato Segment II myosin-like domain.
The misato protein contains three distinct, conserved
domains, segments I, II and III. Segments I and III are
common to Tubulins pfam00091, but segment II aligns
with myosin heavy chain sequences from D. melanogaster
(PIR C35815), rabbit (SP P04460), and human (PIR
S12458). Segment II of misato is a major contributor to
its greater length compared with the various tubulins.
The most significant sequence similarities to this
54-amino acid region are from a motif found in the
heavy chains of myosins from different organisms. A
comparison of segment II with the vertebrate myosin
heavy chains reveals that it is homologous to a myosin
peptide in the hinge region linking the S2 and LMM
domains. Segment II also contains heptad repeats which
are characteristic of the myosin tail alpha-helical
coiled-coils.
Length = 103
Score = 33.5 bits (77), Expect = 0.017
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 19/95 (20%)
Query: 2 REIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYHGDSDLQLERI---NVYYNE---AS 55
REI+ +Q GQ N +G FW +Y E + +V + E
Sbjct: 4 REIITLQLGQYANYVGTHFWNQQE---------SYFTYDPDAPESLIDHDVLFREGLTQD 54
Query: 56 GSK-YVPRAILVDLEPGTMDSVRSGPFGQIFRPDN 89
G + Y PR +L DL+ G + S+R G +++P
Sbjct: 55 GVETYTPRLLLYDLK-GGLGSLRKE--GALYQPLP 86
>gnl|CDD|193426 pfam12953, DUF3842, Domain of unknown function (DUF3842). This
short protein is found mainly in firmicute bacteria. It
is functionally uncharacterized.
Length = 131
Score = 32.1 bits (74), Expect = 0.059
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 142 GTGSGMGTLLISKIREEYPDRI 163
G G G+G +I K+R+E P+RI
Sbjct: 7 GQGGGIGKQIIEKLRKELPERI 28
>gnl|CDD|99910 cd05568, PTS_IIB_bgl_like, PTS_IIB_bgl_like: the PTS
(phosphotransferase system) IIB domain of a family of
sensory systems composed of a membrane-bound
sugar-sensor (similar to BglF) and a transcription
antiterminator (similar to BglG) which regulate
expression of genes involved in sugar utilization. The
domain architecture of the IIB-containing protein
includes a region N-terminal to the IIB domain which is
homologous to the BglG transcription antiterminator with
an RNA-binding domain followed by two homologous
domains, PRD1 and PRD2 (PTS Regulation Domains).
C-terminal to the IIB domain is a domain similar to the
PTS IIA domain. In this system, the BglG-like region and
the IIB and IIA-like domains are all expressed together
as a single multidomain protein. The IIB domain fold
includes a central four-stranded parallel open twisted
beta-sheet flanked by alpha-helices on both sides. The
seven major PTS systems with this IIB fold include this
sensory system with similarity to the bacterial bgl
system, chitobiose/lichenan, ascorbate, lactose,
galactitol, mannitol, and fructose systems.
Length = 85
Score = 29.4 bits (67), Expect = 0.29
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 15/53 (28%)
Query: 144 GSGMGT--LLISKIREEYPDR-IMNTYSVVPSPKEATADEDAEFDEEQEAEVD 193
SG+GT LL SK+++ +P+ I++ S+ E +E + D
Sbjct: 8 PSGIGTSRLLKSKLKKLFPEIEIIDVISLR------------ELEEVDLDDYD 48
>gnl|CDD|131576 TIGR02524, dot_icm_DotB, Dot/Icm secretion system ATPase DotB.
Members of this protein family are the DotB component of
Dot/Icm secretion systems, as found in obligate
intracellular pathogens Legionella pneumophila and
Coxiella burnetii. While this system resembles type IV
secretion systems and has been called a form of type IV,
the liturature now seems to favor calling this the
Dot/Icm system. This family is most closely related to
TraJ proteins of plasmid transfer, rather than to
proteins of other type IV secretion systems.
Length = 358
Score = 29.2 bits (65), Expect = 1.5
Identities = 21/44 (47%), Positives = 24/44 (54%), Gaps = 7/44 (15%)
Query: 141 GGTGSGMGTLLISKIRE--EYPD--RIMNTYSVVPSPKEATADE 180
G TGSG TLL + IRE E PD R + TY +P E DE
Sbjct: 141 GATGSGKSTLLAAIIRELAEAPDSHRKILTYE---APIEFVYDE 181
>gnl|CDD|232805 TIGR00065, ftsZ, cell division protein FtsZ. This family consists
of cell division protein FtsZ, a GTPase found in
bacteria, the chloroplast of plants, and in
archaebacteria. Structurally similar to tubulin, FtsZ
undergoes GTP-dependent polymerization into filaments
that form a cytoskeleton involved in septum synthesis
[Cellular processes, Cell division].
Length = 349
Score = 28.4 bits (64), Expect = 2.6
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 11/64 (17%)
Query: 96 GAGNNWAKGHYTEGAELVDSVLDVVRKEAESCD-CLQGFQLTHSLGGGTGSGMGTLLISK 154
GAG N G + + D +RK E D +T +GGGTG+G +++K
Sbjct: 76 GAGGNPEIG-----RKAAEESRDEIRKLLEGADMVF----ITAGMGGGTGTG-AAPVVAK 125
Query: 155 IREE 158
I +E
Sbjct: 126 IAKE 129
>gnl|CDD|131577 TIGR02525, plasmid_TraJ, plasmid transfer ATPase TraJ. Members of
this protein family are predicted ATPases associated
with plasmid transfer loci in bacteria. This family is
most similar to the DotB ATPase of a type-IV
secretion-like system of obligate intracellular
pathogens Legionella pneumophila and Coxiella burnetii
(TIGR02524) [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 372
Score = 27.8 bits (62), Expect = 4.1
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 139 LGGGTGSGMGTLLISKIR---EEYPDRIMNTY 167
+ G TGSG TL S + E YPDR + TY
Sbjct: 154 ICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185
>gnl|CDD|233279 TIGR01125, TIGR01125, ribosomal protein S12 methylthiotransferase
RimO. Members of this protein are the
methylthiotransferase RimO, which modifies a conserved
Asp residue in ribosomal protein S12. This clade of
radical SAM family proteins is closely related to the
tRNA modification bifunctional enzyme MiaB (see
TIGR01574), and it catalyzes the same two types of
reactions: a radical-mechanism sulfur insertion, and a
methylation of the inserted sulfur. This clade spans
alpha and gamma proteobacteria, cyano bacteria,
Deinococcus, Porphyromonas, Aquifex, Helicobacter,
Campylobacter, Thermotoga, Chlamydia, Streptococcus
coelicolor and Clostridium, but does not include most
other gram positive bacteria, archaea or eukaryotes
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 430
Score = 27.4 bits (61), Expect = 5.0
Identities = 32/105 (30%), Positives = 45/105 (42%), Gaps = 20/105 (19%)
Query: 98 GNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQ--LTHS------LGGGTGSGMGT 149
G W + HY EL D V+D++ AE L L H+ L GSG
Sbjct: 216 GIYWIRMHYLYPDELTDDVIDLM---AEGPKVLPYLDIPLQHASDRILKLMRRPGSGEQQ 272
Query: 150 L-LISKIREEYPDRIMNTYSVVPSPKEATAD--------EDAEFD 185
L I ++RE+ PD ++ T +V P E D E+ +FD
Sbjct: 273 LDFIERLREKCPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFD 317
>gnl|CDD|225258 COG2384, COG2384, Predicted SAM-dependent methyltransferase
[General function prediction only].
Length = 226
Score = 26.9 bits (60), Expect = 6.2
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 128 DCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRI 163
D L +L + +GMG LI +I EE +++
Sbjct: 75 DGLAVLELEDEIDVIVIAGMGGTLIREILEEGKEKL 110
>gnl|CDD|222394 pfam13809, Tubulin_2, Tubulin like. Many of the residues conserved
in Tubulin, pfam00091, are also highly conserved in this
family.
Length = 345
Score = 26.9 bits (60), Expect = 6.6
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 9/71 (12%)
Query: 86 RPDNFVFGQSGAGNNWAKG------HYTEGAELVDSVLDVVRKEAESCDCLQG---FQLT 136
+N ++GAG A G +Y + +++ L +E +G +
Sbjct: 95 LVENITSIEAGAGQIRAVGRLAFFHNYQAIRQAIETALKRTFLLSEGQKVGEGGVNVFVV 154
Query: 137 HSLGGGTGSGM 147
SL GGTGSGM
Sbjct: 155 GSLSGGTGSGM 165
>gnl|CDD|233252 TIGR01056, topB, DNA topoisomerase III, bacteria and conjugative
plasmid. This model describes topoisomerase III from
bacteria and its equivalents encoded on plasmids. The
gene is designated topB if found in the bacterial
chromosome, traE on conjugative plasmid RP4, etc. These
enzymes are involved in the control of DNA topology. DNA
topoisomerase III belongs to the type I topoisomerases,
which are ATP-independent [DNA metabolism, DNA
replication, recombination, and repair].
Length = 660
Score = 27.1 bits (60), Expect = 6.7
Identities = 14/27 (51%), Positives = 14/27 (51%)
Query: 24 ISDEHGIDPTGAYHGDSDLQLERINVY 50
I D H I PTG SDL E NVY
Sbjct: 370 IEDHHAIIPTGNDFNLSDLSEEERNVY 396
>gnl|CDD|217590 pfam03486, HI0933_like, HI0933-like protein.
Length = 405
Score = 26.8 bits (60), Expect = 7.8
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 19 KFWEIISDEHGIDPTGAYHGDSDLQLERI 47
+ + ++ GIDP S L +
Sbjct: 302 RLALFLLEQAGIDPDKKLAQLSKKDLAAL 330
>gnl|CDD|218017 pfam04305, DUF455, Protein of unknown function (DUF455).
Length = 250
Score = 26.4 bits (59), Expect = 8.6
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 7/35 (20%)
Query: 3 EIVHIQAGQCGNQIGAKFWEIISDEHGIDPTGAYH 37
EI H+ IG +++ + + G+DP +
Sbjct: 191 EIGHVA-------IGNRWFRFLCERRGLDPIETFR 218
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
0.314 0.135 0.400
Gapped
Lambda K H
0.267 0.0842 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,219,069
Number of extensions: 954523
Number of successful extensions: 838
Number of sequences better than 10.0: 1
Number of HSP's gapped: 817
Number of HSP's successfully gapped: 48
Length of query: 195
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 103
Effective length of database: 6,857,034
Effective search space: 706274502
Effective search space used: 706274502
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.1 bits)