RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014946
(415 letters)
>gnl|CDD|236468 PRK09330, PRK09330, cell division protein FtsZ; Validated.
Length = 384
Score = 529 bits (1366), Expect = 0.0
Identities = 195/355 (54%), Positives = 254/355 (71%), Gaps = 4/355 (1%)
Query: 59 AKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTRGLGT 118
A IKV+GVGGGG NAVNRMI G+QGV+F A NTD+QALL+S A +Q+G+ LTRGLG
Sbjct: 14 AVIKVIGVGGGGGNAVNRMIEEGIQGVEFIAANTDAQALLKSKAPVKIQLGEKLTRGLGA 73
Query: 119 GGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
G NP +G +AAEES+E I AL+G+D+VFITAGMGGGTG+GAAPVVA+IAKE G LTV V
Sbjct: 74 GANPEVGRKAAEESREEIREALEGADMVFITAGMGGGTGTGAAPVVAEIAKELGILTVAV 133
Query: 179 VTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADDVLR 238
VT PFSFEG+KR QA E IE L+K+VDTLIVIPND+LL++ D++T L DAF ADDVLR
Sbjct: 134 VTKPFSFEGKKRMKQAEEGIEELRKHVDTLIVIPNDKLLEVVDKKTPLLDAFKAADDVLR 193
Query: 239 QGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLAPLI- 297
Q VQGI+D+IT PGL+N+DFADVK VM + G AM+G+G +S ++RA EAAE+A +PL+
Sbjct: 194 QAVQGITDLITKPGLINLDFADVKTVMSEMGLAMMGIGEASGEDRAREAAEKAISSPLLE 253
Query: 298 GSSIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNGEIHVTI 357
I A GV+ NITGG D+TL EV ++++ ADP ANIIFG V+D+ EI VT+
Sbjct: 254 DVDISGAKGVLVNITGGPDLTLFEVEEAAEIIREAADPDANIIFGTVIDEELGDEIRVTV 313
Query: 358 IATGFSQSFQKTLLTNPKAAKVLDKAAGSQESRGVPLPLNTPTSPSTVNSRPPRK 412
IATGF ++ ++ + + ++ +P P+ ++ +
Sbjct: 314 IATGFG---RQAVVPEKQEQQPVETRTDEAPVAPLPQEPQAVAEPAEASAAVEAQ 365
>gnl|CDD|100021 cd02201, FtsZ_type1, 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 = 304
Score = 497 bits (1282), Expect = e-178
Identities = 192/304 (63%), Positives = 241/304 (79%), Gaps = 1/304 (0%)
Query: 59 AKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTRGLGT 118
AKIKV+GVGGGG NAVNRMI SGL+GV+F A NTD+QAL +S A N +Q+G LTRGLG
Sbjct: 1 AKIKVIGVGGGGGNAVNRMIESGLEGVEFIAANTDAQALAKSKAPNKIQLGKELTRGLGA 60
Query: 119 GGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
GG+P +G +AAEES+E I AL+G+D+VFITAGMGGGTG+GAAPV+A+IAKE G LTV V
Sbjct: 61 GGDPEVGRKAAEESREEIKEALEGADMVFITAGMGGGTGTGAAPVIAKIAKEMGALTVAV 120
Query: 179 VTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADDVLR 238
VT PFSFEG+KR QA E +E L+K+VDTLIVIPND+LL++ D+ L +AF LADDVL
Sbjct: 121 VTKPFSFEGKKRMRQAEEGLEELRKHVDTLIVIPNDKLLEVVDKNLPLLEAFKLADDVLA 180
Query: 239 QGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLAPLI- 297
Q V+GISD+IT PGL+N+DFADVK VMK+ G A++G+G +S +NRA EAAE+A +PL+
Sbjct: 181 QAVKGISDLITKPGLINLDFADVKTVMKNKGVALMGIGEASGENRAIEAAEKAISSPLLE 240
Query: 298 GSSIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNGEIHVTI 357
SI A GV+ NITGG D+TL+EVN ++++ DP ANIIFGA +D+ EI VT+
Sbjct: 241 DDSISGAKGVLVNITGGSDLTLEEVNEAAEIIKEKVDPDANIIFGATIDESLEDEIRVTV 300
Query: 358 IATG 361
IATG
Sbjct: 301 IATG 304
>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 = 413 bits (1063), Expect = e-144
Identities = 174/313 (55%), Positives = 226/313 (72%), Gaps = 5/313 (1%)
Query: 55 PMETAKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTR 114
P AKIKV+GVGGGGNN VNRM+ G++GV+F AINTD+Q L + A+ + IG LTR
Sbjct: 14 PSNKAKIKVIGVGGGGNNTVNRMLEEGVEGVEFIAINTDAQHLKTTKADKKILIGKKLTR 73
Query: 115 GLGTGGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYL 174
GLG GGNP +G +AAEES++ I L+G+D+VFITAGMGGGTG+GAAPVVA+IAKE G L
Sbjct: 74 GLGAGGNPEIGRKAAEESRDEIRKLLEGADMVFITAGMGGGTGTGAAPVVAKIAKELGAL 133
Query: 175 TVGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLAD 234
TV VVT PF FEG KR +A E +ERL++ VDTLIVIPND+LL++ L DAF +AD
Sbjct: 134 TVAVVTKPFKFEGLKRRKKAEEGLERLKQAVDTLIVIPNDKLLEVVP-NLPLNDAFKVAD 192
Query: 235 DVLRQGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKN---RAEEAAEQA 291
DVL + V+GIS++IT PGL+N+DFADV+AVM G AM+G+G + ++ RA EA +A
Sbjct: 193 DVLVRAVKGISELITKPGLINIDFADVRAVMSGGGVAMMGIGEALGEDTANRAFEAVRKA 252
Query: 292 TLAPLIGS-SIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYN 350
+PL+ I A G + +ITGG D+TL E + +++TS D ANII+GA++D
Sbjct: 253 LSSPLLDVDKISGAKGALVHITGGADLTLLEAEEIQEIITSELDQDANIIWGAIIDPNLE 312
Query: 351 GEIHVTIIATGFS 363
EI VTI+ATG
Sbjct: 313 DEIRVTIVATGVK 325
>gnl|CDD|237273 PRK13018, PRK13018, cell division protein FtsZ; Provisional.
Length = 378
Score = 407 bits (1048), Expect = e-141
Identities = 167/333 (50%), Positives = 221/333 (66%), Gaps = 4/333 (1%)
Query: 59 AKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTRGLGT 118
KI VVG GG GNN +NR+ G++G + AINTD+Q L A+ + IG LTRGLG
Sbjct: 29 PKIVVVGCGGAGNNTINRLYEIGIEGAETIAINTDAQHLAMIKADKKILIGKSLTRGLGA 88
Query: 119 GGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
GG+P +G +AAEES++ I LKG+DLVF+TAGMGGGTG+GAAPVVA+IAKE G L VGV
Sbjct: 89 GGDPEVGRKAAEESRDEIKEVLKGADLVFVTAGMGGGTGTGAAPVVAEIAKEQGALVVGV 148
Query: 179 VTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADDVLR 238
VT PF FEGR R +A E IERL++ DT+IVI N+RLLDI + DAF +AD+V+
Sbjct: 149 VTKPFKFEGRARMQKAEEGIERLREAADTVIVIDNNRLLDIV-PNLPIADAFSVADEVIA 207
Query: 239 QGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLAPLIG 298
+ V+GI++ IT P L+N+DFADVK+VMK G AM+GVG + +NRA EA A PL+
Sbjct: 208 ETVKGITETITKPSLINLDFADVKSVMKGGGVAMMGVGEAKGQNRAMEAVRAALANPLLD 267
Query: 299 SSIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNGEIHVTII 358
+ A G + +ITGG D+TL+E N + +T DP ANII+GA +D G++ V +I
Sbjct: 268 VDYRGAKGALVHITGGPDLTLKEANEAASRITEELDPEANIIWGARIDPDMEGKVRVMVI 327
Query: 359 ATGFSQSFQKTLLTNPKAAKVLDKAAGSQESRG 391
TG +S Q +L + + + SRG
Sbjct: 328 MTGV-KSAQ--ILGPGTQPQAIISRRSGERSRG 357
>gnl|CDD|223284 COG0206, FtsZ, Cell division GTPase [Cell division and chromosome
partitioning].
Length = 338
Score = 393 bits (1013), Expect = e-136
Identities = 174/315 (55%), Positives = 223/315 (70%), Gaps = 2/315 (0%)
Query: 55 PMETAKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTR 114
A+IKV+GVGG G NAVNRMI G++GV+F AINTD+QAL S A+ + IG+ +TR
Sbjct: 8 ESLKARIKVIGVGGAGGNAVNRMIEEGVEGVEFIAINTDAQALKSSKADRKILIGESITR 67
Query: 115 GLGTGGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYL 174
GLG G NP +G AAEES E I ALKG+D+VF+TAGMGGGTG+GAAPVVA+IAKE G L
Sbjct: 68 GLGAGANPEVGRAAAEESIEEIEEALKGADMVFVTAGMGGGTGTGAAPVVAEIAKELGAL 127
Query: 175 TVGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLAD 234
TV VVT PFSFEG R A E IE L++ VDTLIVIPND+LL D+ + +AF AD
Sbjct: 128 TVAVVTLPFSFEGSPRMENAEEGIEELREVVDTLIVIPNDKLLKGKDKTP-IAEAFNEAD 186
Query: 235 DVLRQGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLA 294
DVL V+GI+++IT PGLVNVDFADV+ VMK G A++G+G +S ++RA EA E+A +
Sbjct: 187 DVLGNAVKGITELITKPGLVNVDFADVRTVMKGGGFALMGIGRASGEDRAREAVEKALNS 246
Query: 295 PLI-GSSIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNGEI 353
PL+ I+ A G + NITGGKD+TL+EV + + + DP A++I+GA +D E+
Sbjct: 247 PLLDDVDIEGAKGALINITGGKDLTLEEVEEALERIQEIIDPDADVIWGAYIDPGLRDEV 306
Query: 354 HVTIIATGFSQSFQK 368
V +IATG S
Sbjct: 307 RVLVIATGIRSSIAL 321
>gnl|CDD|100020 cd02191, FtsZ, 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 = 303
Score = 311 bits (797), Expect = e-104
Identities = 137/304 (45%), Positives = 182/304 (59%), Gaps = 2/304 (0%)
Query: 59 AKIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQSAAENPLQIGDLLTRGLGT 118
AKI V+G GG G N V++ + +G A+NTD+Q LL AEN + IG T+GLG
Sbjct: 1 AKIAVIGFGGAGGNIVDKFLEYDKEGRSAVAVNTDAQDLLGLEAENRVLIGQARTKGLGA 60
Query: 119 GGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
G NP LG +AAEE +E I N D+VFITAG+GGGTG+G APVVA+ K G LTV V
Sbjct: 61 GANPELGAEAAEEVQEAIDNIPVHVDMVFITAGLGGGTGTGGAPVVAEHLKRIGTLTVAV 120
Query: 179 VTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADDVLR 238
VT PFS EG R A E + L + VD L+VIPN++L I E+ +L+ AF AD+VL
Sbjct: 121 VTLPFSDEGGIRMLNAAEGFQTLVREVDNLMVIPNEKLRQIG-EKASLEGAFDHADEVLV 179
Query: 239 QGVQGISDIITIPGLVNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLAPLI- 297
+ V G+ I I G +NVDFADVK VM G AM+G G NRA EA +A L PL+
Sbjct: 180 RAVGGLFGAIEIEGEINVDFADVKNVMDGGGVAMVGYGSEDVTNRATEAVRKAALGPLLL 239
Query: 298 GSSIQSATGVVYNITGGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNGEIHVTI 357
I+ A G + + G D+ L+E+ RV + + SA + G +D+ ++ V+I
Sbjct: 240 PCEIEGAEGALLVMAGPPDLNLKEIERVRKWLEEQTGESATVRGGDYIDNAPRDKVAVSI 299
Query: 358 IATG 361
+ TG
Sbjct: 300 VLTG 303
>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 = 271 bits (695), Expect = 1e-90
Identities = 108/194 (55%), Positives = 133/194 (68%), Gaps = 3/194 (1%)
Query: 60 KIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQALLQ-SAAENPLQIGDLLTRGLGT 118
KIKV GVGGGG NAVN + G +D NTD+QAL S A +Q G+ TRGLG
Sbjct: 1 KIKVFGVGGGGPNAVNVDLEPG--VIDGVRANTDAQALNPESLASGKIQAGNNWTRGLGA 58
Query: 119 GGNPLLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
G +P +G +AAEES + I L+G+D VFITAGMGGGTG+GAAPV+A+IAKE G LTV V
Sbjct: 59 GADPEVGREAAEESLDEIREELEGADGVFITAGMGGGTGTGAAPVIAEIAKEYGILTVAV 118
Query: 179 VTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADDVLR 238
VT PFSFEG R A +E L+++VD+LIVI ND LLDI + L+ AF A+D+L
Sbjct: 119 VTKPFSFEGVVRPYNAELGLEELREHVDSLIVIDNDALLDICGRKLPLRPAFKDANDLLA 178
Query: 239 QGVQGISDIITIPG 252
Q V GI+D+I PG
Sbjct: 179 QAVSGITDLIRFPG 192
>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 = 167 bits (424), Expect = 9e-50
Identities = 91/208 (43%), Positives = 114/208 (54%), Gaps = 38/208 (18%)
Query: 61 IKVVGVGGGGNNAVNRMI----------------------------GSGLQGVDFYAINT 92
I V+GVGG GNN N + G G+ G F AI+T
Sbjct: 1 IIVIGVGGAGNNIGNALWELLCKEHGIDPDGMLFHADKINVFFEESGDGVYGPRFIAIDT 60
Query: 93 DSQALLQSAAENPLQIGDLLTRGL-GTGGNPLLGEQ----AAEESKEVIANAL---KGSD 144
D Q L + A N L IG+ LT+GL G G NP +G AAEES E I L G D
Sbjct: 61 DPQVLNEIKAGNKLFIGNNLTKGLEGAGNNPAVGYYTHKEAAEESLEEIRKELEKCDGLD 120
Query: 145 LVFITAGMGGGTGSGAAPVVAQIAKEA-GYLTVGVVTYPFSFEGRKRSSQALEAIERLQK 203
FITAG+GGGTGSGAAPV+A+I KE G LTV VVT+PF+ EG R A+ ++ L +
Sbjct: 121 GFFITAGLGGGTGSGAAPVIAEILKELYGALTVAVVTFPFTSEGVVRPYNAILGLKELIE 180
Query: 204 NVDTLIVIPNDRLLDITDEQTALQ-DAF 230
+ D++IVI ND LL+I D Q ++ AF
Sbjct: 181 HSDSVIVIDNDALLEICDNQLDIKSPAF 208
>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 = 131 bits (331), Expect = 3e-37
Identities = 61/118 (51%), Positives = 80/118 (67%), Gaps = 2/118 (1%)
Query: 254 VNVDFADVKAVMKDSGTAMLGVGVSSSKNRAEEAAEQATLAPLI-GSSIQSATGVVYNIT 312
+NVDFADVK VM G AM+G+G +S +NRA EAAE A +PL+ S+I A GV+ NIT
Sbjct: 1 INVDFADVKTVMVPMGFAMMGIGPASGENRALEAAELAISSPLLEDSNIMGAKGVLVNIT 60
Query: 313 GGKDITLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNG-EIHVTIIATGFSQSFQKT 369
GG D+TL+EVN + + ADP A II+G V+D+ G EI VT+IATG F++
Sbjct: 61 GGPDLTLKEVNEAMERIREKADPDAFIIWGPVIDEELGGDEIRVTVIATGIGSLFKRL 118
>gnl|CDD|204882 pfam12327, FtsZ_C, FtsZ family, C-terminal domain. This family
includes 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 is a GTPase, like tubulin. FtsZ can polymerise into
tubes, sheets, and rings in vitro and is ubiquitous in
eubacteria and archaea.
Length = 95
Score = 121 bits (307), Expect = 5e-34
Identities = 46/95 (48%), Positives = 62/95 (65%)
Query: 269 GTAMLGVGVSSSKNRAEEAAEQATLAPLIGSSIQSATGVVYNITGGKDITLQEVNRVSQV 328
G AM+G G +S ++RAEEAAE A +PL+ + A GV+ NITGG D+TL+E ++
Sbjct: 1 GVAMMGTGEASGEDRAEEAAEAAISSPLLDVDLSGARGVLVNITGGPDLTLEEAEEAAER 60
Query: 329 VTSLADPSANIIFGAVVDDRYNGEIHVTIIATGFS 363
+ DP ANIIFGA +D GEI VT++ATG
Sbjct: 61 IREEVDPDANIIFGASIDPELEGEIRVTVVATGID 95
>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 = 117 bits (295), Expect = 7e-30
Identities = 70/336 (20%), Positives = 120/336 (35%), Gaps = 42/336 (12%)
Query: 60 KIKVVGVGGGGNNAVNRMIGSGLQGVDFYAINTDSQAL---LQSAAENPLQIGDLLTRGL 116
+I + +G GN + Q V ++T+ + L IG L+T G
Sbjct: 1 EIVTIQLGQAGNQIGAKFW---EQLV---LVDTEPGVIDETLSGPYRLLFCIGQLITHGG 54
Query: 117 GTGGNPLLG-EQAAEESKEVIANALK-------GSDLVFITAGMGGGTGSGAAPVVAQIA 168
G G N G E A EE +E I + ++ FIT +GGGTGSG PV+A+
Sbjct: 55 GAGNNWAFGHETAGEEYQEEILDIIRKEAEECDSLQGFFITHSLGGGTGSGLGPVLAERL 114
Query: 169 KE--AGYLTVGVVTYPFSFEGRK-RSSQALEAIERLQKNVDTLIVIPNDRLLDI-TDEQT 224
K+ L + P EG R ++ + L ++ D L+VI N+ L DI
Sbjct: 115 KDEYPKRLKITFSILPGPDEGVIVRPYNSILTLHTLTEHSDCLVVIDNEALFDICPRPLH 174
Query: 225 ALQDAFLLADDVLRQGVQGISDIITIPGLVNVDF---ADVKAVMKDSGTAMLG------- 274
+ F +++L + ++ + G +NVD ++ M+G
Sbjct: 175 IDKPTFDHINELLATALSSLTTPLRFDGSLNVDLRELSENLVPFPRLHFLMVGYAPLDSE 234
Query: 275 VGVSSSKNRAEEAAEQATLAPLIGSS----IQSATGVVYNITGGKDITLQEVNRVSQVV- 329
+ + R E QA + + + G ++ EV V
Sbjct: 235 GSATPTTLRVAELVRQALRSKNQMVVCDPTHGGYIAALLLVRG--PVSPSEVREGIARVA 292
Query: 330 ---TSLADPSANIIFGAVVDDRYNGEIH-VTIIATG 361
+ L+ I G + +++
Sbjct: 293 PRTSHLSWSPPGIKVGVSPTPPASEHKVSALLLSNS 328
>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 = 99.4 bits (248), Expect = 3e-23
Identities = 62/235 (26%), Positives = 107/235 (45%), Gaps = 24/235 (10%)
Query: 60 KIKVVGVGGGGN------NAVNRMIGSGLQGVDFYAINTDSQALLQ---SAAENPLQIGD 110
++ ++GVG G N ++ G G AINT L AE+ + IG
Sbjct: 2 RVLIIGVGQAGGRIVDALNRHDKRSGFGYCVGAL-AINTAKNDLKGLKHIPAEDRILIGQ 60
Query: 111 LLTRGLGTGGNPLLGEQAAEESKEVIANALKGS-----DLVFITAGMGGGTGSGAAPVVA 165
+G G G + LG + AEE E + A+ D + + AG+GGGTGSG APV+A
Sbjct: 61 SEVKGHGVGADRELGAEVAEEDLEEVMRAIDDRGTSDADAILVIAGLGGGTGSGGAPVLA 120
Query: 166 QIAKEA-GYLTVGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQT 224
+ KE + P EG + S+ A +++ L + D +I+ ND
Sbjct: 121 KELKERYEEPVYALGVLPAREEGERYSANAARSLDALSEEADAIILFDNDAWKRKG---E 177
Query: 225 ALQDAF-LLADDVLRQ-GV---QGISDIITIPGLVNVDFADVKAVMKDSGTAMLG 274
++++A+ + +++ R+ G+ G ++ G +D ++V + G A +G
Sbjct: 178 SVEEAYDRINEEIARRIGLLLRAGEANAGDSVGESVLDASEVINTLSGGGFATIG 232
>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 = 34.6 bits (80), Expect = 0.088
Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 152 MGGGTGSGAAPVVAQIAKEAGY---LTVGVVTYPFSF-EGRKRSSQALEAIERLQKNVDT 207
+ GGTGSG V ++ ++ Y L + +V +P++ E ++ + + L ++ D
Sbjct: 135 LAGGTGSGLGSRVTELLRDE-YPESLLLNIVVWPYTTGEVIVQNYNTVLTLAHLYESSDA 193
Query: 208 LIVIPNDRLLDI 219
+I++ ND + I
Sbjct: 194 IILLENDDIHRI 205
>gnl|CDD|237085 PRK12383, PRK12383, putative mutase; Provisional.
Length = 406
Score = 34.2 bits (79), Expect = 0.11
Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 296 LIGSSIQSATGVVYNITGGKD-ITLQEVNRVSQVVTSLADPSANIIFGAVVDD 347
IG ++++ G VYN+T I+ + ++ ++V I+FG ++ D
Sbjct: 139 AIGDNLEADLGQVYNVTANLSVISFDDALKIGRIVREQVQVGRVIVFGGLLTD 191
>gnl|CDD|240228 PTZ00010, PTZ00010, tubulin beta chain; Provisional.
Length = 445
Score = 34.0 bits (78), Expect = 0.16
Identities = 35/137 (25%), Positives = 53/137 (38%), Gaps = 36/137 (26%)
Query: 99 QSAAENPLQIGDLLTRGLGTGGNPLLGEQAAEESKEVIANALKGSDLV--F-ITAGMGGG 155
QS A N G + G + + +V+ + D + F IT +GGG
Sbjct: 94 QSGAGNNWAKG-----------HYTEGAELIDSVLDVVRKEAESCDCLQGFQITHSLGGG 142
Query: 156 TGSGAAPVVAQIAKEAGYLTVGVVTYP------FS-FEGRKRSSQALE------AIERLQ 202
TGSG ++ +E YP FS F K S +E ++ +L
Sbjct: 143 TGSGMGTLLISKLRE---------EYPDRIMMTFSVFPSPKVSDTVVEPYNATLSVHQLV 193
Query: 203 KNVDTLIVIPNDRLLDI 219
+N D + I N+ L DI
Sbjct: 194 ENADESMCIDNEALYDI 210
>gnl|CDD|224338 COG1420, HrcA, Transcriptional regulator of heat shock gene
[Transcription].
Length = 346
Score = 33.4 bits (77), Expect = 0.20
Identities = 23/101 (22%), Positives = 46/101 (45%), Gaps = 10/101 (9%)
Query: 205 VDTLIVIPNDRLLDITDEQTALQDAFLLADDVLRQGVQGISDIITIPGLV------NVDF 258
VD L+ + + + ++ L+ +D+L++ Q +S++ + G+V +
Sbjct: 77 VDHLLEVEDLSEEERRRIESFLESEGYDLEDLLQKAAQLLSELTGLTGVVLTPKFSDESL 136
Query: 259 ADVKAVMKDSGTAMLGVGVSSS---KNRAEEAAEQATLAPL 296
++ V D A+ V V+ S +NR E E TL+ L
Sbjct: 137 KHIELVPLDPHRALA-VLVTDSGEVENRIIELPEGITLSDL 176
>gnl|CDD|143475 cd06567, Peptidase_S41, C-terminal processing peptidase family S41.
Peptidase family S41 (C-terminal processing peptidase
or CTPase family) contains very different subfamilies;
it includes photosystem II D1 C-terminal processing
protease (CTPase), interphotoreceptor retinoid-binding
protein IRBP and tricorn protease (TRI). CTPase and TRI
both contain the PDZ domain while IRBP, although being
very similar to the tail-specific protease domain, lacks
the PDZ insertion domain and hydrolytic activity. These
serine proteases have distinctly different active sites:
in CTPase, the active site consists of a serine/lysine
catalytic dyad while in tricorn core protease, it is a
tetrad (serine, histidine, serine, glutamate). CPases
with different substrate specificities in different
species include processing of D1 protein of the
photosystem II reaction center in higher plants and
cleavage of a peptide of 11 residues from the precursor
form of penicillin-binding protein; and others such as
tricorn protease (TRI) act as a carboxypeptidase,
involved in the degradation of proteasomal products.
CTPase homolog IRBP, secreted by photoreceptors into the
interphotoreceptor matrix, having arisen in the early
evolution of the vertebrate eye, promotes the release of
all-trans retinol from photoreceptors and facilitates
its delivery to the retinal pigment epithelium.
Length = 224
Score = 32.7 bits (75), Expect = 0.24
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 171 AGYLTVGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIV 210
+ YLT+G + P SF + + EA+ L+K V LI+
Sbjct: 56 SRYLTIGYIRIP-SFSAESTAEELREALAELKKGVKGLIL 94
>gnl|CDD|224007 COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate
transport and metabolism].
Length = 274
Score = 32.9 bits (75), Expect = 0.26
Identities = 48/227 (21%), Positives = 83/227 (36%), Gaps = 25/227 (11%)
Query: 86 DFYAINTDSQALLQSAAENPLQIGDLLT-RGLGTGGNPLLGEQAAEESKEVIANALK-GS 143
F A + L + A+ L+I L + E+A EE K I A + G+
Sbjct: 39 LFPADYKELAELKELLADYGLEITSLAPFSNNLLSPDEEEREEALEELKRAIELAKELGA 98
Query: 144 DLVFITAGMGGGTGSGAAPVVA------------QIAKEAGYLTVGVVTYPFSFEGRKRS 191
+V + G+G G +P A +IA+E G + + + + +
Sbjct: 99 KVVVVHPGLGAGADDPDSPEEARERWAEALEELAEIAEELG-IGLALENHHHPGNVVETG 157
Query: 192 SQALEAIERL-QKNV----DT--LIVIPNDRLLDITDEQTALQDAFLLAD-DVLRQGVQG 243
+ AL+ + + NV DT D L I + L D D +
Sbjct: 158 ADALDLLREVDSPNVGLLLDTGHAFFAGEDPLEAI-RKLGDRIGHVHLKDADGPTLDIVN 216
Query: 244 ISDIITIPGLVNVDFADVKAVMKDSG-TAMLGVGVSSSKNRAEEAAE 289
PG ++DF + + ++++G L V V + + E A E
Sbjct: 217 FLGQHLPPGDGDIDFKAIFSALREAGYDGWLVVEVFAPNDAEEYARE 263
>gnl|CDD|133422 cd01337, MDH_glyoxysomal_mitochondrial, Glyoxysomal and
mitochondrial malate dehydrogenases. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. Members of this subfamily are
localized to the glycosome and mitochondria. MDHs are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 310
Score = 32.8 bits (76), Expect = 0.30
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 133 KEVIANALKGSDLVFITAGM 152
E + ALKG+D+V I AG+
Sbjct: 59 PEELKKALKGADVVVIPAGV 78
>gnl|CDD|187554 cd05243, SDR_a5, atypical (a) SDRs, subgroup 5. This subgroup
contains atypical SDRs, some of which are identified as
putative NAD(P)-dependent epimerases, one as a putative
NAD-dependent epimerase/dehydratase. Atypical SDRs are
distinct from classical SDRs. Members of this subgroup
have a glycine-rich NAD(P)-binding motif that is very
similar to the extended SDRs, GXXGXXG, and binds NADP.
Generally, this subgroup has poor conservation of the
active site tetrad; however, individual sequences do
contain matches to the YXXXK active site motif, the
upstream Ser, and there is a highly conserved Asp in
place of the usual active site Asn throughout the
subgroup. Atypical SDRs generally lack the catalytic
residues characteristic of the SDRs, and their
glycine-rich NAD(P)-binding motif is often different
from the forms normally seen in classical or extended
SDRs. Atypical SDRs include biliverdin IX beta reductase
(BVR-B,aka flavin reductase), NMRa (a negative
transcriptional regulator of various fungi),
progesterone 5-beta-reductase like proteins,
phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they catalyze a wide range of activities including the
metabolism of steroids, cofactors, carbohydrates,
lipids, aromatic compounds, and amino acids, and act in
redox sensing. Classical SDRs have an TGXXX[AG]XG
cofactor binding motif and a YXXXK active site motif,
with the Tyr residue of the active site motif serving as
a critical catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, contributing to the active site;
while substrate binding is in the C-terminal region,
which determines specificity. The standard reaction
mechanism is a 4-pro-S hydride transfer and proton relay
involving the conserved Tyr and Lys, a water molecule
stabilized by Asn, and nicotinamide. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type ketoacyl
reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.
Length = 203
Score = 32.2 bits (74), Expect = 0.32
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 131 ESKEVIANALKGSDLVFITAGMGGGTGSGAAPV-------VAQIAKEAG 172
E +A AL+G D V AG GG G V + AK+AG
Sbjct: 52 TDAESLAAALEGIDAVISAAGSGGKGGPRTEAVDYDGNINLIDAAKKAG 100
>gnl|CDD|223471 COG0394, Wzb, Protein-tyrosine-phosphatase [Signal transduction
mechanisms].
Length = 139
Score = 31.5 bits (72), Expect = 0.38
Identities = 10/40 (25%), Positives = 16/40 (40%)
Query: 134 EVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGY 173
E + L ++ +AG GG G P ++ E G
Sbjct: 20 EALLRHLAPDNVEVDSAGTGGHPGEPPDPRAVEVLAEHGI 59
>gnl|CDD|232858 TIGR00177, molyb_syn, molybdenum cofactor synthesis domain. The
Drosophila protein cinnamon, the Arabidopsis protein
cnx1, and rat protein gephyrin each have one domain like
MoeA and one like MoaB and Mog. These domains are,
however, distantly related to each other, as captured by
This model. Gephyrin is unusual in that it seems to be a
tubulin-binding neuroprotein involved in the clustering
of both blycine receptors and GABA receptors, rather
than a protein of molybdenum cofactor biosynthesis.
Length = 144
Score = 31.1 bits (71), Expect = 0.47
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 130 EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG-YLTVGVVTYPFSFEGR 188
EE +E++ A+ +D+V T GGTG G V + +E G G Y + R
Sbjct: 54 EEIREILRKAVDEADVVLTT----GGTGVGPRDVTPEALEELGEKEIPGFGEYFTAVLSR 109
>gnl|CDD|214856 smart00852, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 138
Score = 31.0 bits (71), Expect = 0.55
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 130 EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
E +E + AL +D+V T GGTG G + + E G
Sbjct: 47 EAIREALREALAEADVVITT----GGTGPGPDDLTPEALAELG 85
>gnl|CDD|213252 cd03285, ABC_MSH2_euk, ATP-binding cassette domain of eukaryotic
MutS2 homolog. The MutS protein initiates DNA mismatch
repair by recognizing mispaired and unpaired bases
embedded in duplex DNA and activating endo- and
exonucleases to remove the mismatch. Members of the MutS
family possess C-terminal domain with a conserved ATPase
activity that belongs to the ATP binding cassette (ABC)
superfamily. MutS homologs (MSH) have been identified in
most prokaryotic and all eukaryotic organisms examined.
Prokaryotes have two homologs (MutS1 and MutS2), whereas
seven MSH proteins (MSH1 to MSH7) have been identified
in eukaryotes. The homodimer MutS1 and heterodimers
MSH2-MSH3 and MSH2-MSH6 are primarily involved in
mitotic mismatch repair, whereas MSH4-MSH5 is involved
in resolution of Holliday junctions during meiosis. All
members of the MutS family contain the highly conserved
Walker A/B ATPase domain, and many share a common
mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and
MSH4-MSH5 dimerize to form sliding clamps, and
recognition of specific DNA structures or lesions
results in ADP/ATP exchange.
Length = 222
Score = 31.2 bits (71), Expect = 0.69
Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 12/74 (16%)
Query: 49 ISCSFAPMETAKIKVVGVGGGGNNAVNRMIGSG---LQGVD-FYAINTDSQALLQSAAEN 104
I C F P ++A I +V + + +G+ L+GV F A ++ A+L+SA EN
Sbjct: 59 IGC-FVPCDSADIPIV-------DCILARVGASDSQLKGVSTFMAEMLETAAILKSATEN 110
Query: 105 PLQIGDLLTRGLGT 118
L I D L RG T
Sbjct: 111 SLIIIDELGRGTST 124
>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 = 31.1 bits (71), Expect = 0.98
Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 12/85 (14%)
Query: 147 FITAGMGGGTGSGAAPVVAQIAKEA--GYLTVGVVTYPFSFEGRKRSSQALE------AI 198
IT +GGGTGSG ++ ++ + L +P + SS +E ++
Sbjct: 93 QITHSLGGGTGSGLGSLLLELLSDEYPKILINTFSIFPSP----QGSSNVVEPYNSILSL 148
Query: 199 ERLQKNVDTLIVIPNDRLLDITDEQ 223
L +N D++I+ N+ L +I Q
Sbjct: 149 NHLLENSDSVILFDNEALYNILTRQ 173
>gnl|CDD|215107 PLN00220, PLN00220, tubulin beta chain; Provisional.
Length = 447
Score = 31.3 bits (71), Expect = 1.0
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 148 ITAGMGGGTGSGAAP-VVAQIAKEAG---YLTVGVVTYPFSFEGRKRSSQALEAIERLQK 203
+ +GGGTGSG ++++I +E LT V P + A ++ +L +
Sbjct: 135 VCHSLGGGTGSGMGTLLISKIREEYPDRMMLTFSVFPSPKVSDTVVEPYNATLSVHQLVE 194
Query: 204 NVDTLIVIPNDRLLDI 219
N D +V+ N+ L DI
Sbjct: 195 NADECMVLDNEALYDI 210
>gnl|CDD|223677 COG0604, Qor, NADPH:quinone reductase and related Zn-dependent
oxidoreductases [Energy production and conversion /
General function prediction only].
Length = 326
Score = 31.2 bits (71), Expect = 1.1
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 140 LKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGVVT 180
LK + V + GG GS A Q+AK G V VV+
Sbjct: 140 LKPGETVLVHGA-AGGVGSAAI----QLAKALGATVVAVVS 175
>gnl|CDD|130581 TIGR01518, g3p_cytidyltrns, glycerol-3-phosphate
cytidylyltransferase. This model describes
glycerol-3-phosphate cytidyltransferase, also called
CDP-glycerol pyrophosphorylase. A closely related
protein assigned a different function experimentally is
a human ethanolamine-phosphate cytidylyltransferase (EC
2.7.7.14). Glycerol-3-phosphate cytidyltransferase acts
in pathways of teichoic acid biosynthesis. Teichoic
acids are substituted polymers, linked by phosphodiester
bonds, of glycerol, ribitol, etc. An example is
poly(glycerol phosphate), the major teichoic acid of the
Bacillus subtilis cell wall. Most but not all species
encoding proteins in this family are Gram-positive
bacteria [Cell envelope, Biosynthesis and degradation of
murein sacculus and peptidoglycan].
Length = 125
Score = 29.8 bits (67), Expect = 1.1
Identities = 24/80 (30%), Positives = 36/80 (45%), Gaps = 21/80 (26%)
Query: 168 AKEAG-YLTVGVVTYPFSFEGRKRS-------SQALEAIERLQKNVDTLIVIP----NDR 215
AK+ G YL V + T F+ + +K++ LE I + VD +VIP +
Sbjct: 21 AKQLGDYLIVALSTDEFNLQKQKKAYHSYEHRKLILETI----RYVD--LVIPEKSWEQK 74
Query: 216 LLDITDEQTALQDAFLLADD 235
DI D D F++ DD
Sbjct: 75 KQDIIDFNI---DVFVMGDD 91
>gnl|CDD|176190 cd05288, PGDH, Prostaglandin dehydrogenases. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 30.9 bits (71), Expect = 1.1
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 136 IANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGVV 179
I G + V ++A G GS VV QIAK G VG+
Sbjct: 140 IGKPKPG-ETVVVSAA-AGAVGS----VVGQIAKLLGARVVGIA 177
>gnl|CDD|107299 cd06304, PBP1_BmpA_like, Periplasmic binding component of a family
of basic membrane lipoproteins from Borrelia and various
putative lipoproteins from other bacteria. Periplasmic
binding component of a family of basic membrane
lipoproteins from Borrelia and various putative
lipoproteins from other bacteria. These outer membrane
proteins include Med, a cell-surface localized protein
regulating the competence transcription factor gene comK
in Bacillus subtilis, and PnrA, a periplasmic purine
nucleoside binding protein of an ATP-binding cassette
(ABC) transport system in Treponema pallidum. All
contain the type I periplasmic sugar-binding
protein-like fold.
Length = 260
Score = 30.6 bits (70), Expect = 1.2
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 9/47 (19%)
Query: 136 IANAL--KGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGVVT 180
A AL +G+D++F GGTG G V Q AKEAG +GV +
Sbjct: 171 AALALIDQGADVIF---AAAGGTGPG----VIQAAKEAGVYAIGVDS 210
>gnl|CDD|223380 COG0303, MoeA, Molybdopterin biosynthesis enzyme [Coenzyme
metabolism].
Length = 404
Score = 30.7 bits (70), Expect = 1.4
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 7/57 (12%)
Query: 119 GGNPLLGEQAA---EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
GG + E +E I AL +D++ + GG G A V +
Sbjct: 216 GGEVVDLGIVPDDPEALREAIEKALSEADVIITS----GGVSVGDADYVKAALEREL 268
>gnl|CDD|216230 pfam00994, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 140
Score = 29.2 bits (66), Expect = 1.9
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 130 EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
E KE +A A +D+V T GGTG G V + E G
Sbjct: 44 EAIKEALAAAADEADVVITT----GGTGPGPDDVTPEALAELG 82
>gnl|CDD|233086 TIGR00676, fadh2, 5,10-methylenetetrahydrofolate reductase,
prokaryotic form. The enzyme activities
methylenetetrahydrofolate reductase (EC 1.5.1.20) and
5,10-methylenetetrahydrofolate reductase (FADH) (EC
1.7.99.5) differ in that 1.5.1.20 (assigned in many
eukaryotes) is defined to use NADP+ as an acceptor,
while 1.7.99.5 (assigned in many bacteria) is flexible
with respect to the acceptor; both convert
5-methyltetrahydrofolate to
5,10-methylenetetrahydrofolate. From a larger set of
proteins assigned as 1.5.1.20 and 1.7.99.5, this model
describes the subset of proteins found in bacteria, and
currently designated 1.7.99.5. This protein is an
FAD-containing flavoprotein [Amino acid biosynthesis,
Aspartate family].
Length = 272
Score = 29.9 bits (68), Expect = 1.9
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 139 ALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGVVTYPFSFEGRKRSSQALEAI 198
AL+G GG + A+ +V I E G +GV YP E + E I
Sbjct: 92 ALRGDPPKGEGTPTPGGF-NYASELVEFIRNEFGDFDIGVAAYP---EKHPEAPNLEEDI 147
Query: 199 ERLQKNVD 206
E L++ VD
Sbjct: 148 ENLKRKVD 155
>gnl|CDD|227356 COG5023, COG5023, Tubulin [Cytoskeleton].
Length = 443
Score = 30.0 bits (68), Expect = 2.1
Identities = 31/141 (21%), Positives = 65/141 (46%), Gaps = 8/141 (5%)
Query: 125 GEQAAEESKEVIANALKGSDLV---FITAGMGGGTGSG-AAPVVAQIAKEAG---YLTVG 177
G++ ++ ++I G D + + +GGGTGSG + ++ ++ +E LT
Sbjct: 109 GKEIIDDVMDMIRREADGCDGLQGFLLLHSLGGGTGSGLGSLLLERLREEYPKKIKLTFS 168
Query: 178 VVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQD-AFLLADDV 236
V P + ++ + RL +N D V+ N+ L DI +Q+ ++ + +
Sbjct: 169 VFPAPKVSDVVVEPYNSVLTLHRLLENSDCTFVVDNEALYDICRRNLRIQNPSYDDLNQL 228
Query: 237 LRQGVQGISDIITIPGLVNVD 257
+ + ++ + PG +NVD
Sbjct: 229 ISTVMSSVTTSLRFPGYLNVD 249
>gnl|CDD|183050 PRK11241, gabD, succinate-semialdehyde dehydrogenase I;
Provisional.
Length = 482
Score = 29.9 bits (67), Expect = 2.5
Identities = 20/47 (42%), Positives = 30/47 (63%), Gaps = 3/47 (6%)
Query: 101 AAENPLQIGDLLTRGLGTGGNPLLGEQAAEESKEVIANAL-KGSDLV 146
A + L IGD L +G+ G PL+ E+A + +E IA+AL KG+ +V
Sbjct: 311 QAVSKLHIGDGLEKGVTIG--PLIDEKAVAKVEEHIADALEKGARVV 355
>gnl|CDD|181512 PRK08637, PRK08637, hypothetical protein; Provisional.
Length = 388
Score = 29.9 bits (68), Expect = 2.6
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 318 TLQEVNRVSQVVTSLADPSANIIFGAVVDDRYNG 351
T +E + + + LAD ++ AVVDD Y G
Sbjct: 164 TEKEATAIVEAIKELADAGTKVV--AVVDDAYFG 195
>gnl|CDD|128705 smart00428, H3, Histone H3.
Length = 105
Score = 28.2 bits (63), Expect = 2.8
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 188 RKRSSQ-ALEAIERLQKNVDTLI-VIPNDRLL-DITDEQTALQD 228
R R Q AL I + QK+ D LI P RL+ +I + T D
Sbjct: 8 RYRPGQVALREIRKYQKSTDLLIRKAPFQRLVREIAQKFTTGVD 51
>gnl|CDD|219363 pfam07287, DUF1446, Protein of unknown function (DUF1446). This
family consists of several bacterial and plant proteins
of around 400 residues in length. The function of this
family is unknown.
Length = 362
Score = 29.8 bits (68), Expect = 3.0
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 148 ITAGMGGGTGSGAAPVVAQIAKEAGY-LTVGVVT 180
I G GAA V ++A E G L V VV
Sbjct: 74 IVTNAGALNPEGAARAVRELAAELGLSLKVAVVE 107
>gnl|CDD|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase
subunit A'' fusion protein; Provisional.
Length = 509
Score = 29.8 bits (67), Expect = 3.1
Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 164 VAQIAKEAGYLTVGVVTYPFSFEGRK-RSSQALEAIERLQKNVDTLIVIPNDRLLDITDE 222
VA I + ++V V + R L AI +L V +D ++ + +
Sbjct: 267 VADIITDIAEMSVVVELDEEKMKERLIEYDDILAAISKLTF----KTVEIDDGIIRLKPQ 322
Query: 223 QTALQDAFLLADDVLRQGVQGISDI 247
Q + + +LLA+ V ++GI I
Sbjct: 323 QPSFKKLYLLAEKVKSLTIKGIKGI 347
>gnl|CDD|163643 cd07400, MPP_YydB, Bacillus subtilis YydB and related proteins,
metallophosphatase domain. YydB (BSU40220) is an
uncharacterized Bacillus subtilis protein that belongs
to the following Bacillus subtilis gene cluster
yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to the
metallophosphatase (MPP) superfamily. MPPs are
functionally diverse, but all share a conserved domain
with an active site consisting of two metal ions
(usually manganese, iron, or zinc) coordinated with
octahedral geometry by a cage of histidine, aspartate,
and asparagine residues. The MPP superfamily includes:
Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat
debranching enzymes, YfcE-like phosphodiesterases,
purple acid phosphatases (PAPs), YbbF-like
UDP-2,3-diacylglucosamine hydrolases, and acid
sphingomyelinases (ASMases). The conserved domain is a
double beta-sheet sandwich with a di-metal active site
made up of residues located at the C-terminal side of
the sheets. This domain is thought to allow for
productive metal coordination.
Length = 144
Score = 28.5 bits (64), Expect = 3.4
Identities = 18/77 (23%), Positives = 29/77 (37%), Gaps = 9/77 (11%)
Query: 176 VGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDAFLLADD 235
G P + L I+ L + D L+VI D +T Q L + F A +
Sbjct: 9 FGPERKPELLALLSLLDRLLAEIKAL--DPD-LVVITGD----LT--QRGLPEEFEEARE 59
Query: 236 VLRQGVQGISDIITIPG 252
L + ++ +PG
Sbjct: 60 FLDALPAPLEPVLVVPG 76
>gnl|CDD|107349 cd06354, PBP1_BmpA_PnrA_like, Periplasmic binding domain of basic
membrane lipoprotein, PnrA, in Treponema pallidum and
its homologs from other bacteria and Archaea.
Periplasmic binding domain of basic membrane
lipoprotein, PnrA, in Treponema pallidum and its
homologs from other bacteria and Archaea. The PnrA
lipoprotein, also known as Tp0319 or TmpC, represents a
novel family of bacterial purine nucleoside receptor
encoded within an ATP-binding cassette (ABC) transport
system (pnrABCDE). It shows a striking structural
similarity to another basic membrane lipoprotein Med
which regulates the competence transcription factor
gene, comK, in Bacillus subtilis. The members of
PnrA-like subgroup are likely to have similar
nucleoside-binding functions and a similar type I
periplasmic sugar-binding protein-like fold.
Length = 265
Score = 29.4 bits (67), Expect = 3.5
Identities = 21/45 (46%), Positives = 28/45 (62%), Gaps = 9/45 (20%)
Query: 136 IANAL--KGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGV 178
IA A+ +G+D++F AG GTG+G V Q AKEAG +GV
Sbjct: 175 IAQAMYDQGADVIFAAAG---GTGNG----VFQAAKEAGVYAIGV 212
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in bird
and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 28.7 bits (65), Expect = 3.5
Identities = 24/99 (24%), Positives = 35/99 (35%), Gaps = 27/99 (27%)
Query: 60 KIKVVGVGGG-----GNNAVNRMIGSGLQGVDFYAINTDSQAL-LQSAAENPLQIGDLLT 113
K+ VVG GGG + + L VD + A+ L + L
Sbjct: 2 KVAVVGAGGGVGSSLAFALALQGLADELVLVDINKDKAEGVAMDLSHGSTF------LSV 55
Query: 114 RGLGTGGNPLLGEQAAEESKEVIANALKGSDLVFITAGM 152
G+ G + ALK +D+V ITAG+
Sbjct: 56 PGIVGGDDY---------------EALKDADVVVITAGV 79
>gnl|CDD|237732 PRK14498, PRK14498, putative molybdopterin biosynthesis protein
MoeA/LysR substrate binding-domain-containing protein;
Provisional.
Length = 633
Score = 29.4 bits (67), Expect = 3.7
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 119 GGNPLLGEQAA---EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
GG P+ EE + + ALK DLV + GGT +GA V ++ +E G
Sbjct: 226 GGEPVRYGIVPDDEEELEAALRKALKECDLVLL----SGGTSAGAGDVTYRVIEELG 278
>gnl|CDD|236368 PRK09058, PRK09058, coproporphyrinogen III oxidase; Provisional.
Length = 449
Score = 29.5 bits (67), Expect = 3.8
Identities = 11/27 (40%), Positives = 12/27 (44%)
Query: 78 IGSGLQGVDFYAINTDSQALLQSAAEN 104
GL GVD YA+N L A E
Sbjct: 240 RDLGLDGVDLYALNLLPGTPLAKAVEK 266
>gnl|CDD|239202 cd02808, GltS_FMN, Glutamate synthase (GltS) FMN-binding domain.
GltS is a complex iron-sulfur flavoprotein that
catalyzes the reductive synthesis of L-glutamate from
2-oxoglutarate and L-glutamine via intramolecular
channelling of ammonia, a reaction in the plant, yeast
and bacterial pathway for ammonia assimilation. It is a
multifunctional enzyme that functions through three
distinct active centers, carrying out L-glutamine
hydrolysis, conversion of 2-oxoglutarate into
L-glutamate, and electron uptake from an electron donor.
Length = 392
Score = 29.0 bits (66), Expect = 4.6
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 128 AAEESKEVIANALKGSDLVFIT-AGMGGGTGSGAAPVVAQIAKEAG 172
A + IA + + FIT G GGT GAAP+ G
Sbjct: 222 VAGHGEGDIAAGVAAAGADFITIDGAEGGT--GAAPLT--FIDHVG 263
>gnl|CDD|173128 PRK14665, mnmA, tRNA-specific 2-thiouridylase MnmA; Provisional.
Length = 360
Score = 29.1 bits (65), Expect = 4.8
Identities = 19/46 (41%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 151 GMGGGTGSGAAPVVAQIAKEAGYLTVGVVTYPFSFEGRKRSSQALE 196
GM GGT S V A + EAGY GV F F S++ LE
Sbjct: 11 GMSGGTDSS---VAAMLLLEAGYEVTGVT---FRFYEFNGSTEYLE 50
>gnl|CDD|132171 TIGR03127, RuMP_HxlB, 6-phospho 3-hexuloisomerase. Members of this
protein family are 6-phospho 3-hexuloisomerase (PHI), or
the PHI domain of a fusion protein. This enzyme is part
of the ribulose monophosphate (RuMP) pathway, which in
one direction removes the toxic metabolite formaldehyde
by assimilation into fructose-6-phosphate. In the other
direction, in species lacking a complete pentose
phosphate pathway, the RuMP pathway yields
ribulose-5-phosphate, necessary for nucleotide
biosynthesis, at the cost of also yielding formaldehyde.
These latter species tend usually have a
formaldehyde-activating enzyme to attach formaldehyde to
the C1 carrier tetrahydromethanopterin.
Length = 179
Score = 28.4 bits (64), Expect = 5.1
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 134 EVIANALKGSDLVFITAGMGGGTGSGAAPV-VAQIAKEAGYLTVGVVTYPFS 184
E ++K DL+ G+G + V VA+ AKE G + T P S
Sbjct: 64 ETTTPSIKKGDLLIA----ISGSGETESLVTVAKKAKEIGATVAAITTNPES 111
>gnl|CDD|236677 PRK10378, PRK10378, inactive ferrous ion transporter periplasmic
protein EfeO; Provisional.
Length = 375
Score = 29.0 bits (65), Expect = 5.4
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 19/64 (29%)
Query: 344 VVDDRYNGEIHVTIIATGFSQSFQKTL-----------LTNPKAAKVLDKAAGSQESRGV 392
VV++R N IA GFSQ L LTNPK K++ K + ++
Sbjct: 75 VVEEREN-------IAPGFSQKMTANLQPGEYDMTCGLLTNPK-GKLIVKGEATADAAQS 126
Query: 393 PLPL 396
L
Sbjct: 127 DALL 130
>gnl|CDD|232869 TIGR00197, yjeF_nterm, yjeF N-terminal region. The protein region
corresponding to This model shows no clear homology to
any protein of known function. This model is built on
yeast protein YNL200C and the N-terminal regions of E.
coli yjeF and its orthologs in various species. The
C-terminal region of yjeF and its orthologs shows
similarity to hydroxyethylthiazole kinase (thiM) and
other enzymes involved in thiamine biosynthesis. Yeast
YKL151C and B. subtilis yxkO match the yjeF C-terminal
domain but lack this region [Unknown function, General].
Length = 205
Score = 28.1 bits (63), Expect = 7.0
Identities = 24/101 (23%), Positives = 36/101 (35%), Gaps = 18/101 (17%)
Query: 123 LLGEQAAEESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAGYLTVGVVTYP 182
LL E A + + + A + V I G G G G VVA+ K G V
Sbjct: 25 LLMENAGKAVAQEVLRAFPLAGHVIIFCGPGNNGGDGF--VVARHLKGFGV----EVFLL 78
Query: 183 FSFEGRKRSSQALEAIE------------RLQKNVDTLIVI 211
E + + QA+ ++ L K D ++I
Sbjct: 79 KKEERIEFTEQAVVNLKALKVGGISIDEGNLVKPEDCDVII 119
>gnl|CDD|191263 pfam05368, NmrA, NmrA-like family. NmrA is a negative
transcriptional regulator involved in the
post-translational modification of the transcription
factor AreA. NmrA is part of a system controlling
nitrogen metabolite repression in fungi. This family
only contains a few sequences as iteration results in
significant matches to other Rossmann fold families.
Length = 232
Score = 28.0 bits (63), Expect = 7.3
Identities = 16/44 (36%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 131 ESKEVIANALKGSDLVFITAGMGGG--TGSGAAPVVAQIAKEAG 172
+ E + ALKG D+VF G G A AKEAG
Sbjct: 53 DDHESLVEALKGVDVVFSVTGFWLSKEIEDGKKLADA--AKEAG 94
>gnl|CDD|189047 cd09877, PIN_YacL, PIN domain of Thermus Thermophilus Hb8,
uncharacterized Bacillus subtilis YacL, and other
bacterial homologs. PIN (PilT N terminus) domain of the
conserved membrane protein of unknown function of
Thermus Thermophilus Hb8, Bacillus subtilis YacL and
other similar homologs are included in this family.
These PIN domains are structural homologs of flap
endonuclease-1 (FEN1)-like PIN domains, but lack the
extensive arch/clamp region and the H3TH
(helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domain homologs within this group contain
four highly conserved acidic residues (putative
metal-binding, active site residues) which cluster at
the C-terminal end of the beta-sheet and form a
negatively charged pocket near the center of the
molecule. Proteins in this group have a C-terminal TRAM
domain whose function is unknown but predicted to be a
RNA-binding domain common to tRNA uracil methylation and
adenine thiolation enzymes.
Length = 127
Score = 27.5 bits (62), Expect = 7.6
Identities = 10/39 (25%), Positives = 16/39 (41%)
Query: 188 RKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTAL 226
R R + L+ + RLQ+ + I DI + L
Sbjct: 48 RARGRRGLDVLNRLQEESGIEVEIHETDFPDIKEVDDKL 86
>gnl|CDD|180917 PRK07279, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1034
Score = 28.5 bits (64), Expect = 7.7
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 170 EAGYLTVGVVTYPFSFEGRKRSSQALEAIERLQKNVDTLIVIPNDRLLDITDEQTALQDA 229
E L VGV +P ++SS+ I +L KN + I++ + I + Q A
Sbjct: 851 EQELLGVGVSKHPL-QAIAEKSSRPFTPISQLVKNSEATILVQIQSIRVIRTKTKGQQMA 909
Query: 230 FLLADD 235
FL D
Sbjct: 910 FLSVTD 915
>gnl|CDD|238452 cd00887, MoeA, MoeA family. Members of this family are involved in
biosynthesis of the molybdenum cofactor (MoCF), an
essential cofactor of a diverse group of redox enzymes.
MoCF biosynthesis is an evolutionarily conserved pathway
present in eubacteria, archaea and eukaryotes. MoCF
contains a tricyclic pyranopterin, termed molybdopterin
(MPT). MoeA, together with MoaB, is responsible for the
metal incorporation into MPT, the third step in MoCF
biosynthesis. The plant homolog Cnx1 is a MoeA-MogA
fusion protein. The mammalian homolog gephyrin is a
MogA-MoeA fusion protein, that plays a critical role in
postsynaptic anchoring of inhibitory glycine receptors
and major GABAa receptor subtypes.
Length = 394
Score = 28.2 bits (64), Expect = 8.7
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 130 EESKEVIANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
E +E + AL+ +D+V + GG G V ++ +E G
Sbjct: 222 EALREALEEALEEADVVITS----GGVSVGDYDFVKEVLEELG 260
>gnl|CDD|129823 TIGR00740, TIGR00740, tRNA (cmo5U34)-methyltransferase. This tRNA
methyltransferase is involved, together with cmoB, in
preparing the uridine-5-oxyacetic acid (cmo5U) at
position 34 [Unknown function, Enzymes of unknown
specificity].
Length = 239
Score = 27.9 bits (62), Expect = 9.0
Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 206 DTLIVIPNDRLLDIT-DEQTALQDAFLLADDVLRQGVQGISDIITIPGLVNVDFADVKAV 264
DTL P +L D DE A + F D++++ V G S+IIT G++ F +
Sbjct: 2 DTLFSTPIAKLGDFIFDENVA--EVF---PDMIQRSVPGYSNIITAIGMLAERFVTPDSN 56
Query: 265 MKDSGTAMLGVGVSSSKN 282
+ D G + +S+ +N
Sbjct: 57 VYDLGCSRGAATLSARRN 74
>gnl|CDD|100109 cd05831, Ribosomal_P1, Ribosomal protein P1. This subfamily
represents the eukaryotic large ribosomal protein P1.
Eukaryotic P1 and P2 are functionally equivalent to the
bacterial protein L7/L12, but are not homologous to
L7/L12. P1 is located in the L12 stalk, with proteins
P2, P0, L11, and 28S rRNA. P1 and P2 are the only
proteins in the ribosome to occur as multimers, always
appearing as sets of heterodimers. Recent data indicate
that eukaryotes have four copies (two heterodimers),
while most archaeal species contain six copies of L12p
(three homodimers) and bacteria may have four or six
copies (two or three homodimers), depending on the
species. Experiments using S. cerevisiae P1 and P2
indicate that P1 proteins are positioned more internally
with limited reactivity in the C-terminal domains, while
P2 proteins seem to be more externally located and are
more likely to interact with other cellular components.
In lower eukaryotes, P1 and P2 are further subdivided
into P1A, P1B, P2A, and P2B, which form P1A/P2B and
P1B/P2A heterodimers. Some plant species have a third
P-protein, called P3, which is not homologous to P1 and
P2. In humans, P1 and P2 are strongly autoimmunogenic.
They play a significant role in the etiology and
pathogenesis of systemic lupus erythema (SLE). In
addition, the ribosome-inactivating protein
trichosanthin (TCS) interacts with human P0, P1, and P2,
with its primary binding site located in the C-terminal
region of P2. TCS inactivates the ribosome by
depurinating a specific adenine in the sarcin-ricin loop
of 28S rRNA.
Length = 103
Score = 26.5 bits (59), Expect = 9.7
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 137 ANALKGSDLVFITAGMGGGTGSGAAPVVAQIAKEAG 172
A AL+G D+ + + +GGG G GAAP A A A
Sbjct: 43 AKALEGKDIKDLLSNVGGG-GGGAAPAAAAAAAAAA 77
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
0.313 0.130 0.356
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: 20,724,323
Number of extensions: 2049956
Number of successful extensions: 2002
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1968
Number of HSP's successfully gapped: 96
Length of query: 415
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 316
Effective length of database: 6,546,556
Effective search space: 2068711696
Effective search space used: 2068711696
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: 60 (26.7 bits)