RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14493
(318 letters)
>gnl|CDD|235580 PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase
subunit alpha; Validated.
Length = 319
Score = 509 bits (1314), Expect = 0.0
Identities = 173/274 (63%), Positives = 217/274 (79%), Gaps = 3/274 (1%)
Query: 1 MKNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQI 60
M +L+FE+PI +LE KIE+LR++ S++D S+EI L KK +LT++IYS LTPWQ
Sbjct: 1 MMLNYLDFEKPIAELEAKIEELRAVAEDSDVDLSEEIERLEKKLEELTKKIYSNLTPWQK 60
Query: 61 SQIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRN 120
Q+ARHP+RPYTLDYI +FTD ELHGDR + DD +I+G LAR+NG MVIGHQKGR+
Sbjct: 61 VQLARHPQRPYTLDYIELLFTDFTELHGDRAFADDKAIVGGLARLNGRPVMVIGHQKGRD 120
Query: 121 VNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGH 180
E+I RNFGM +PEGYRKA+RLM +AEKF LPI TFIDTPGA+PGI AEERGQSEAI
Sbjct: 121 TKEKIRRNFGMPRPEGYRKALRLMKMAEKFGLPIITFIDTPGAYPGIGAEERGQSEAIAR 180
Query: 181 SIYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKR 240
++ M++LKVP+I T+IGEGGSGGALAI V D LML+Y+ YSVISPEGCASILWK + +
Sbjct: 181 NLREMARLKVPIICTVIGEGGSGGALAIGVGDRVLMLEYSTYSVISPEGCASILWKDASK 240
Query: 241 ASDAAEALGLTADKLKSIGLINKIIKEPIAYSGG 274
A +AAEA+ +TA LK +G+I++II EP+ GG
Sbjct: 241 APEAAEAMKITAQDLKELGIIDEIIPEPL---GG 271
>gnl|CDD|223895 COG0825, AccA, Acetyl-CoA carboxylase alpha subunit [Lipid
metabolism].
Length = 317
Score = 450 bits (1160), Expect = e-161
Identities = 163/265 (61%), Positives = 210/265 (79%)
Query: 5 FLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIA 64
+L+FE+PI +LE KI++L++L +++D S EI L K+ +LT++IYS LTPWQ Q+A
Sbjct: 4 YLDFEKPIAELEAKIDELKALAEENDVDLSDEIERLEKRLAELTKKIYSNLTPWQRVQLA 63
Query: 65 RHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNER 124
RHP RPYTLDYI +FTD ELHGDR + DD +I+G LAR G+ +VIGHQKGR+ E+
Sbjct: 64 RHPDRPYTLDYIELLFTDFVELHGDRAFADDPAIVGGLARFGGQPVVVIGHQKGRDTKEK 123
Query: 125 IIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYV 184
+ RNFGM +PEGYRKA+RLM +AEKF LPI TFIDTPGA+PGI AEERGQSEAI ++
Sbjct: 124 LKRNFGMPRPEGYRKALRLMKLAEKFGLPIITFIDTPGAYPGIGAEERGQSEAIARNLRE 183
Query: 185 MSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKRASDA 244
M++LKVP+IS +IGEGGSGGALAI V+D LML+ + YSVISPEGCASILWK + +A +A
Sbjct: 184 MARLKVPIISIVIGEGGSGGALAIGVADRVLMLENSTYSVISPEGCASILWKDASKAKEA 243
Query: 245 AEALGLTADKLKSIGLINKIIKEPI 269
AEA+ +TA LK +G+I+ II EP+
Sbjct: 244 AEAMKITAHDLKELGIIDGIIPEPL 268
>gnl|CDD|233004 TIGR00513, accA, acetyl-CoA carboxylase, carboxyl transferase,
alpha subunit. The enzyme acetyl-CoA carboxylase
contains a biotin carboxyl carrier protein or domain, a
biotin carboxylase, and a carboxyl transferase. This
model represents the alpha chain of the carboxyl
transferase for cases in which the architecture of the
protein is as in E. coli, in which the
carboxyltransferase portion consists of two
non-identical subnits, alpha and beta [Fatty acid and
phospholipid metabolism, Biosynthesis].
Length = 316
Score = 399 bits (1026), Expect = e-140
Identities = 161/281 (57%), Positives = 205/281 (72%), Gaps = 3/281 (1%)
Query: 1 MKNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQI 60
M +L+FE+PI +LE KIE LR+ ++D S+EI L K+ +LT++I+S L WQ
Sbjct: 1 MMANYLDFEKPIAELEAKIESLRARSRDEDVDLSEEIERLEKRSVELTKKIFSNLGAWQR 60
Query: 61 SQIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRN 120
Q+ARHP RPYTLDYI IF D EL GDR Y DD +I+G +AR++G +VIGHQKGR+
Sbjct: 61 LQLARHPDRPYTLDYIELIFDDFFELAGDRAYADDKAIVGGIARLDGRPVVVIGHQKGRD 120
Query: 121 VNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGH 180
E++ RNFGM PEGYRKA+RLM +AE+F +PI TFIDTPGA+PGI AEERGQSEAI
Sbjct: 121 TKEKLRRNFGMPAPEGYRKALRLMKMAERFKMPIITFIDTPGAYPGIGAEERGQSEAIAR 180
Query: 181 SIYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKR 240
++ M++L VP+I T+IGEGGSGGALAI V D ML+Y+ YSVISPEGCA+ILWK + +
Sbjct: 181 NLREMARLGVPVICTVIGEGGSGGALAIGVGDKVNMLEYSTYSVISPEGCAAILWKDASK 240
Query: 241 ASDAAEALGLTADKLKSIGLINKIIKEPIAYSGGIDSSVLL 281
A AAEA+ +TA LK +GLI+ II EP GG + L
Sbjct: 241 APKAAEAMKITAPDLKELGLIDSIIPEP---LGGAHRNPLA 278
>gnl|CDD|214393 CHL00198, accA, acetyl-CoA carboxylase carboxyltransferase alpha
subunit; Provisional.
Length = 322
Score = 323 bits (830), Expect = e-110
Identities = 130/269 (48%), Positives = 183/269 (68%)
Query: 1 MKNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQI 60
K +F +P+ +LE ++E+L L ++ + ++ +K L +EI+ LTP Q
Sbjct: 4 RKPHVPDFMKPLAELESQVEELSKLAPKNDKVINNKLKSFQRKLRILKKEIFYSLTPLQR 63
Query: 61 SQIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRN 120
+ R +RP TLDYI I + ELHGDR DD +++G + +ING + + +GHQ+GRN
Sbjct: 64 LHLVRQSERPTTLDYIPYILDEWIELHGDRGGSDDPALVGGIGKINGRTIVFLGHQRGRN 123
Query: 121 VNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGH 180
E ++RNFGM P GYRKA+RLM A KF LPI TFIDTPGA+ G+ AE+ GQ EAI
Sbjct: 124 TKENVLRNFGMPSPGGYRKALRLMKHANKFGLPILTFIDTPGAWAGVKAEKLGQGEAIAV 183
Query: 181 SIYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKR 240
++ M +VP+I TIIGEGGSGGAL I + D +ML+YA+Y+V +PE CA+ILWK SK+
Sbjct: 184 NLREMFSFEVPIICTIIGEGGSGGALGIGIGDSIMMLEYAVYTVATPEACAAILWKDSKK 243
Query: 241 ASDAAEALGLTADKLKSIGLINKIIKEPI 269
+ DAAEAL +T++ LK +G+I++II EPI
Sbjct: 244 SLDAAEALKITSEDLKVLGIIDEIIPEPI 272
>gnl|CDD|178769 PLN03230, PLN03230, acetyl-coenzyme A carboxylase carboxyl
transferase; Provisional.
Length = 431
Score = 301 bits (773), Expect = e-100
Identities = 132/268 (49%), Positives = 184/268 (68%)
Query: 2 KNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQIS 61
K + L FE+PI+ LE +I+++R L + +D S +I +L ++ +++ E+YS+LTP Q
Sbjct: 72 KPVTLPFEKPIVDLENRIDEVRELANKTGVDFSAQIAELEERYDQVRRELYSRLTPVQRL 131
Query: 62 QIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNV 121
+ARHP RP LD++ + ELHGDR DD +I+ + + G S M IGHQKGRN
Sbjct: 132 SVARHPNRPTFLDHVLNMTDKWVELHGDRAGFDDPAIVCGIGSMEGMSFMFIGHQKGRNT 191
Query: 122 NERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHS 181
E I RNF M +P GYRKA+R M AEKF PI TF+DTPGA+ GI AEE GQ EAI +
Sbjct: 192 KENIYRNFAMPQPNGYRKALRFMRHAEKFGFPILTFVDTPGAYAGIKAEELGQGEAIAFN 251
Query: 182 IYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKRA 241
+ M L+VP+I+T+IGEGGSGGALAI + LM++ A+Y V SPE CA+ILWK++ A
Sbjct: 252 LREMFGLRVPIIATVIGEGGSGGALAIGCGNRMLMMENAVYYVASPEACAAILWKSAAAA 311
Query: 242 SDAAEALGLTADKLKSIGLINKIIKEPI 269
AAEAL +TA +L +G++++I+ EP+
Sbjct: 312 PKAAEALRITAAELVKLGVVDEIVPEPL 339
>gnl|CDD|183435 PRK12319, PRK12319, acetyl-CoA carboxylase subunit alpha;
Provisional.
Length = 256
Score = 267 bits (685), Expect = 2e-89
Identities = 111/209 (53%), Positives = 151/209 (72%)
Query: 59 QISQIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKG 118
+I + AR R TLDY IF D ELHGDR++ DD +++G + + G+ V+G QKG
Sbjct: 6 RILKEARDQGRLTTLDYATLIFDDFMELHGDRHFRDDGAVVGGIGYLAGQPVTVVGIQKG 65
Query: 119 RNVNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAI 178
+N+ + + RNFG PEGYRKA+RLM AEKF P+ TFI+T GA+PG+ AEERGQ EAI
Sbjct: 66 KNLQDNLKRNFGQPHPEGYRKALRLMKQAEKFGRPVVTFINTAGAYPGVGAEERGQGEAI 125
Query: 179 GHSIYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTS 238
++ MS LKVP+I+ IIGEGGSGGALA+AV+D ML+ +Y+V+SPEG ASILWK
Sbjct: 126 ARNLMEMSDLKVPIIAIIIGEGGSGGALALAVADQVWMLENTMYAVLSPEGFASILWKDG 185
Query: 239 KRASDAAEALGLTADKLKSIGLINKIIKE 267
RA++AAE + +TA +L +G+++K+I E
Sbjct: 186 SRATEAAELMKITAGELLEMGVVDKVIPE 214
>gnl|CDD|178768 PLN03229, PLN03229, acetyl-coenzyme A carboxylase carboxyl
transferase subunit alpha; Provisional.
Length = 762
Score = 278 bits (712), Expect = 9e-88
Identities = 131/268 (48%), Positives = 179/268 (66%)
Query: 2 KNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQIS 61
K + L+FE+P++ LEKKI +R + + +D S +I L K + +++Y+ LTP Q
Sbjct: 93 KPVTLDFEKPLVDLEKKIVDVRKMANETGLDFSDQIISLESKYQQALKDLYTHLTPIQRV 152
Query: 62 QIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNV 121
IARHP RP LD+I I ELHGDR DD +I+ + I+G+ M IGHQKGRN
Sbjct: 153 NIARHPNRPTFLDHIFNITDKFVELHGDRAGYDDPAIVTGIGTIDGKRYMFIGHQKGRNT 212
Query: 122 NERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHS 181
E I+RNFGM P GYRKA+R+M+ A+ PI TFIDTPGA+ + +EE GQ EAI H+
Sbjct: 213 KENIMRNFGMPTPHGYRKALRMMYYADHHGFPIVTFIDTPGAYADLKSEELGQGEAIAHN 272
Query: 182 IYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSVISPEGCASILWKTSKRA 241
+ M LKVP++S +IGEGGSGGALAI ++ LML+ A++ V SPE CA+ILWK++K A
Sbjct: 273 LRTMFGLKVPIVSIVIGEGGSGGALAIGCANKLLMLENAVFYVASPEACAAILWKSAKAA 332
Query: 242 SDAAEALGLTADKLKSIGLINKIIKEPI 269
AAE L +TA +L + + + II EP+
Sbjct: 333 PKAAEKLRITAQELCRLQIADGIIPEPL 360
>gnl|CDD|217457 pfam03255, ACCA, Acetyl co-enzyme A carboxylase carboxyltransferase
alpha subunit. Acetyl co-enzyme A carboxylase
carboxyltransferase is composed of an alpha and beta
subunit.
Length = 145
Score = 215 bits (550), Expect = 1e-70
Identities = 82/145 (56%), Positives = 103/145 (71%)
Query: 4 IFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQI 63
+ L FE+P+ +LE KI++LR L +++D S EI+ L KK +KL EIYS LTPWQ Q+
Sbjct: 1 VLLEFEKPLAELEAKIDELRKLARKNDVDVSDEIHRLEKKLDKLKREIYSNLTPWQRVQL 60
Query: 64 ARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNE 123
ARHP RP TLDYI I D ELHGDR DD +I+G L RI+G +VIGHQKGR+ E
Sbjct: 61 ARHPDRPTTLDYIENILDDFIELHGDRAGADDPAIVGGLGRIDGRPVVVIGHQKGRDTKE 120
Query: 124 RIIRNFGMAKPEGYRKAVRLMHIAE 148
++RNFGM PEGYRKA+RLM A+
Sbjct: 121 NLLRNFGMPAPEGYRKALRLMKHAD 145
>gnl|CDD|227136 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
component (subunits alpha and beta) [Lipid metabolism].
Length = 526
Score = 74.9 bits (185), Expect = 5e-15
Identities = 50/202 (24%), Positives = 84/202 (41%), Gaps = 27/202 (13%)
Query: 67 PKRPYTL-DYIREIF--TDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNE 123
P++PY + + I + + E Y ++ + G ARI+G +I N+
Sbjct: 284 PRKPYDVREVIARLVDDGEFLEFK--AGYAKNI-VTG-FARIDGRPVGIIA-------NQ 332
Query: 124 RIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHS-- 181
G+ + KA R + + + FN+P+ +DTPG PG D E G I H
Sbjct: 333 PRHLG-GVLDIDSADKAARFIRLCDAFNIPLVFLVDTPGFMPGTDQEYGG---IIKHGAK 388
Query: 182 -IYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAI----YSVISPEGCASILWK 236
+Y +++ VP I+ I + G + + YA +V+ PEG SIL++
Sbjct: 389 LLYAVAEATVPKITVITRKAYGGAYYVMGGKALGPDFNYAWPTAEIAVMGPEGAVSILYR 448
Query: 237 TSKRASDAAEALGLTADKLKSI 258
K + A A K +
Sbjct: 449 --KELAAAERPEEREALLRKQL 468
Score = 50.3 bits (121), Expect = 5e-07
Identities = 33/148 (22%), Positives = 54/148 (36%), Gaps = 24/148 (16%)
Query: 79 IFTDIHEL--HGDRNYGDDLSIIGVLA---RINGESCMVIGHQ---KGRNVNERIIRNFG 130
F ++ L H ++L GV+ ING V + KG G
Sbjct: 57 SFLELGALAGHRMGGDANELPGDGVVTGIGTINGRKVFVFANDFTVKG-----------G 105
Query: 131 MAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYVMSKL-- 188
+K +R +A + LP+ D+ GA G Y ++
Sbjct: 106 TLGEMTAKKILRAQELAIENGLPVIGLNDSGGARIQEGVPSL---AGYGRIFYRNARASG 162
Query: 189 KVPLISTIIGEGGSGGALAIAVSDITLM 216
+P IS ++G GGA + A++D +M
Sbjct: 163 VIPQISVVMGPCAGGGAYSPALTDFVIM 190
>gnl|CDD|216259 pfam01039, Carboxyl_trans, Carboxyl transferase domain. All of the
members in this family are biotin dependent
carboxylases. The carboxyl transferase domain carries
out the following reaction; transcarboxylation from
biotin to an acceptor molecule. There are two recognised
types of carboxyl transferase. One of them uses acyl-CoA
and the other uses 2-oxoacid as the acceptor molecule of
carbon dioxide. All of the members in this family
utilise acyl-CoA as the acceptor molecule.
Length = 487
Score = 67.7 bits (166), Expect = 1e-12
Identities = 46/191 (24%), Positives = 76/191 (39%), Gaps = 25/191 (13%)
Query: 67 PKRPYTLDYIREIFTDI------HELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRN 120
PKRPY D +RE+ I E Y + + G AR+ G V+
Sbjct: 252 PKRPY--D-VREVIAGIVDEGSFFETKAG--YAKTV-VTG-FARLGGIPVGVVA------ 298
Query: 121 VNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGH 180
N+ + G+ + KA R + + FN+P+ +D PG PG D E G +
Sbjct: 299 -NQPRVLA-GVLFIDSADKAARFIRDCDAFNIPLVILVDVPGFLPGTDQEYGGILKHGAK 356
Query: 181 SIYVMSKLKVPLISTIIGEGGSGGALAIA----VSDITLMLQYAIYSVISPEGCASILWK 236
+Y +++ VP I+ I + G + + +D A +V+ PEG I ++
Sbjct: 357 LLYALAEATVPKITVIPRKAYGGAYVVMDSKINGADAVFAWPTARIAVMGPEGAVEIKFR 416
Query: 237 TSKRASDAAEA 247
A+
Sbjct: 417 KELAAATMRYK 427
Score = 33.0 bits (76), Expect = 0.19
Identities = 29/123 (23%), Positives = 44/123 (35%), Gaps = 16/123 (13%)
Query: 99 IGVLA---RINGESCMVIGHQKGRNVNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPIF 155
GV+ I+G + V+ + + G P K R M +A K P+
Sbjct: 45 DGVVTGSGAIDGRAVEVVA-------QDFTVWG-GSLGPAHGFKITRAMELAIKEGEPLI 96
Query: 156 TFIDTPGAFPGIDAEERGQSEAIGHSIYVMSKLK--VPLISTIIGEGGSGGALAIAVSDI 213
D+ GA E G S+ +P IS + G GGA + A+ D
Sbjct: 97 GINDSGGARIQEGVENLRGY---GLIFGANSRASGVIPQISLVTGPCAGGGAYSPALGDF 153
Query: 214 TLM 216
+M
Sbjct: 154 IIM 156
>gnl|CDD|130187 TIGR01117, mmdA, methylmalonyl-CoA decarboxylase alpha subunit.
This model describes methymalonyl-CoA decarboxylase
aplha subunit in archaea and bacteria. Metylmalonyl-CoA
decarboxylase Na+ pump is a representative of a class of
Na+ transport decarboxylases that couples the energy
derived by decarboxylation of carboxylic acid substrates
to drive the extrusion of Na+ ion across the membrane
[Energy metabolism, ATP-proton motive force
interconversion, Energy metabolism, Fermentation,
Transport and binding proteins, Cations and iron
carrying compounds].
Length = 512
Score = 66.0 bits (161), Expect = 5e-12
Identities = 65/236 (27%), Positives = 100/236 (42%), Gaps = 29/236 (12%)
Query: 19 IEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIARHPKRPYTL-DYIR 77
I +L S S+N++ + + + T E+Y L P +P +PY + D I
Sbjct: 236 IRRLLSFLPSNNMEKAPLV-KTGDDPTRETPELYD-LLP-------DNPNKPYDMRDVIT 286
Query: 78 EIFT--DIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNERIIRNFGMAKPE 135
I D E+ Y + II ARING+S +I +Q G +
Sbjct: 287 AIVDNGDYLEVQ--PYYAPN--IITCFARINGQSVGIIANQP--------KVMAGCLDID 334
Query: 136 GYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYVMSKLKVPLIST 195
K R + + FN+PI TF+D PG PG++ E G +Y S+ VP ++
Sbjct: 335 SSDKIARFIRFCDAFNIPIVTFVDVPGFLPGVNQEYGGIIRHGAKVLYAYSEATVPKVTI 394
Query: 196 IIGEGGSGGALAIAV----SDITLMLQYAIYSVISPEGCASILW-KTSKRASDAAE 246
I + G LA+ +D A +V+ P G A+I++ K K A D A
Sbjct: 395 ITRKAYGGAYLAMCSKHLGADQVYAWPTAEIAVMGPAGAANIIFRKDIKEAKDPAA 450
Score = 28.3 bits (63), Expect = 7.2
Identities = 24/93 (25%), Positives = 41/93 (44%), Gaps = 11/93 (11%)
Query: 139 KAVRLMHIAEKFNLPIFTFIDTPGAF--PGIDAEERGQSEAIGHSIYVMSKLK---VPLI 193
K V++M +A K P+ D+ GA +DA +G + I+ + + VP I
Sbjct: 105 KIVKIMDLAMKMGAPVVGLNDSGGARIQEAVDAL-KGYGD-----IFYRNTIASGVVPQI 158
Query: 194 STIIGEGGSGGALAIAVSDITLMLQYAIYSVIS 226
S I+G G + A++D M+ I+
Sbjct: 159 SAIMGPCAGGAVYSPALTDFIYMVDNTSQMFIT 191
>gnl|CDD|238950 cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the
PP-loop faimly implicated in cell cycle control [Cell
division and chromosome partitioning]. This is a
subfamily of Adenine nucleotide alpha hydrolases
superfamily.Adeninosine nucleotide alpha hydrolases
superfamily includes N type ATP PPases and ATP
sulphurylases. It forms a apha/beta/apha fold which
binds to Adenosine group. This domain has a strongly
conserved motif SGGXD at the N terminus.
Length = 185
Score = 60.3 bits (147), Expect = 5e-11
Identities = 16/49 (32%), Positives = 24/49 (48%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A SGG DS LL + L ++ H++HGL P SD+ +
Sbjct: 4 VAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRPESDEEAAFVAD 52
>gnl|CDD|233864 TIGR02432, lysidine_TilS_N, tRNA(Ile)-lysidine synthetase,
N-terminal domain. The only examples in which the
wobble position of a tRNA must discriminate between G
and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop)
vs. UGG (Trp). In all bacteria, the wobble position of
the tRNA(Ile) recognizing AUA is lysidine, a lysine
derivative of cytidine. This family describes a protein
domain found, apparently, in all bacteria in a single
copy. Eukaryotic sequences appear to be organellar. The
domain archictecture of this protein family is variable;
some, including characterized proteins of E. coli and B.
subtilis known to be tRNA(Ile)-lysidine synthetase,
include a conserved 50-residue domain that many other
members lack. This protein belongs to the ATP-binding
PP-loop family ( pfam01171). It appears in the
literature and protein databases as TilS, YacA, and
putative cell cycle protein MesJ (a misnomer) [Protein
synthesis, tRNA and rRNA base modification].
Length = 189
Score = 59.9 bits (146), Expect = 8e-11
Identities = 18/49 (36%), Positives = 26/49 (53%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A SGG+DS LL + L KI+ H++HGL P SD+ +
Sbjct: 4 VAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRPESDEEAEFVQQ 52
>gnl|CDD|216343 pfam01171, ATP_bind_3, PP-loop family. This family of proteins
belongs to the PP-loop superfamily.
Length = 182
Score = 58.4 bits (142), Expect = 2e-10
Identities = 17/49 (34%), Positives = 23/49 (46%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A SGG DS LL + L + I H++HGL SD+ K
Sbjct: 4 VAVSGGPDSMALLYLLKKLKPKFGIDLTAAHVDHGLREESDREAQFVKE 52
>gnl|CDD|182626 PRK10660, tilS, tRNA(Ile)-lysidine synthetase; Provisional.
Length = 436
Score = 54.2 bits (131), Expect = 3e-08
Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 7/53 (13%)
Query: 269 IAYSGGIDSSVLLDISFTLFC----NYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A+SGG+DS+VLL + L N + H++HGLSP++D W+ HC+
Sbjct: 20 VAFSGGLDSTVLLHL---LVQWRTENPGVTLRAIHVHHGLSPNADSWVKHCEQ 69
>gnl|CDD|223115 COG0037, MesJ, tRNA(Ile)-lysidine synthase MesJ [Cell cycle
control, cell division, chromosome partitioning].
Length = 298
Score = 49.9 bits (119), Expect = 5e-07
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 254 KLKSIGLIN-KIIKEPIAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSPSSDKWL 312
++ LI KI+ +A SGG DS LL + L +I+ H++HGL SD+
Sbjct: 13 AIREFNLIEYKIL---VAVSGGKDSLALLHLLKEL--GRRIEVEAVHVDHGLRGYSDQEA 67
Query: 313 IHCKN 317
+
Sbjct: 68 ELVEK 72
>gnl|CDD|178415 PLN02820, PLN02820, 3-methylcrotonyl-CoA carboxylase, beta chain.
Length = 569
Score = 45.6 bits (108), Expect = 2e-05
Identities = 65/279 (23%), Positives = 112/279 (40%), Gaps = 48/279 (17%)
Query: 23 RSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIARHPKRPYTL--DYIREI- 79
S FS+N SK + L+ + ++ + P + RH R L + I +
Sbjct: 39 NSDAFSAN---SKAMEGLLSELRSHVAKVRAGGGP---EAVKRHRSRNKLLPRERIDRLL 92
Query: 80 -----FTDIHELHGDRNYGDDL---SIIGVLARINGESCMVIGHQKGRNVNERIIRNFGM 131
F ++ +L G YG+DL I+ + ++G CM + N+ ++ G
Sbjct: 93 DPGSPFLELSQLAGHELYGEDLPSGGIVTGIGPVHGRLCMFVA-------NDPTVKG-GT 144
Query: 132 AKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIY---VMSKL 188
P +K +R IA + LP +D+ GA AE + G Y MS
Sbjct: 145 YYPITVKKHLRAQEIAAQCRLPCIYLVDSGGANLPRQAEVFPDRDHFGRIFYNQARMSSA 204
Query: 189 KVPLISTIIGEGGSGGALAIAVSDITLM--------------LQYAIYSVISPE--GCAS 232
+P I+ ++G +GGA A++D +++ ++ A +S E G A
Sbjct: 205 GIPQIALVLGSCTAGGAYVPAMADESVIVKGNGTIFLAGPPLVKAATGEEVSAEDLGGAD 264
Query: 233 ILWKTS----KRASDAAEALGLTADKLKSIGLINKIIKE 267
+ K S A D AL + + +K++ L K E
Sbjct: 265 VHCKVSGVSDHFAQDELHALAIGRNIVKNLHLAAKQGME 303
Score = 32.5 bits (74), Expect = 0.28
Identities = 34/140 (24%), Positives = 57/140 (40%), Gaps = 18/140 (12%)
Query: 67 PKRPYTLDYIREIFTDIHELHG-DRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNERI 125
K+ + + + D E +NYG L + G ARI G+ +IG
Sbjct: 331 HKQSFDVRSVIARIVDGSEFDEFKKNYGTTL-VTG-FARIYGQPVGIIG----------- 377
Query: 126 IRNFGMAKPEGYRKAVRLMHIAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYVM 185
N G+ E K + + + +P+ + G G +E G ++A + +
Sbjct: 378 --NNGILFTESALKGAHFIELCAQRGIPLLFLQNITGFMVGSRSEASGIAKAGAKMVMAV 435
Query: 186 SKLKVPLISTIIGEGGSGGA 205
+ KVP I+ I+ GGS GA
Sbjct: 436 ACAKVPKITIIV--GGSFGA 453
>gnl|CDD|238944 cd01986, Alpha_ANH_like, Adenine nucleotide alpha hydrolases
superfamily including N type ATP PPases and ATP
sulphurylases. The domain forms a apha/beta/apha fold
which binds to Adenosine group..
Length = 103
Score = 37.9 bits (88), Expect = 8e-04
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A+SGG DSSV + L Q ++HG+SP + K
Sbjct: 3 VAFSGGKDSSVAAALLKKLG----YQVIAVTVDHGISPRLEDAKEIAKE 47
>gnl|CDD|223253 COG0175, CysH, 3'-phosphoadenosine 5'-phosphosulfate
sulfotransferase (PAPS reductase)/FAD synthetase and
related enzymes [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 261
Score = 35.5 bits (82), Expect = 0.024
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGL 304
+++SGG DS+VLL ++ F + F V ++ G
Sbjct: 44 VSFSGGKDSTVLLHLAAKAFPD----FPVIFLDTGY 75
>gnl|CDD|238951 cd01993, Alpha_ANH_like_II, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily.Adeninosine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins is predicted to bind ATP.
This domainhas a strongly conserved motif SGGKD at the
N terminus.
Length = 185
Score = 34.5 bits (80), Expect = 0.033
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 269 IAYSGGIDSSVLLDI--SFTLFCNYKIQFYVFHINHGLSPSSDKWLIHCKN 317
+A SGG DS VLL + Y + ++ G+ D+ L +
Sbjct: 4 VALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGYRDESLEVVER 54
>gnl|CDD|234116 TIGR03134, malonate_gamma, malonate decarboxylase, gamma subunit.
Members of this protein family are the gamma subunit of
malonate decarboxylase. Malonate decarboxylase may be a
soluble enzyme, or linked to membrane subunits and
active as a sodium pump. In the malonate decarboxylase
complex, the beta subunit appears to act as a
malonyl-CoA decarboxylase, while the gamma subunit
appears either to mediate subunit interaction or to act
as a co-decarboxylase with the beta subunit. The beta
and gamma subunits exhibit some local sequence
similarity.
Length = 238
Score = 34.5 bits (80), Expect = 0.042
Identities = 45/181 (24%), Positives = 77/181 (42%), Gaps = 25/181 (13%)
Query: 74 DYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGHQKGRNVNERIIRNFGMAK 133
D++ +F + HE+ GD ++ A + G VIG V + + G+
Sbjct: 4 DWLAALFPNGHEVAGDP------GVLVGSAELAGGKVTVIG-----VVPDAEV---GLD- 48
Query: 134 PEGYRKAVRLMH-IAEKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYVMSKLKV-- 190
EG A ++ I PI +DTP G E G ++A+ H ++ ++
Sbjct: 49 -EGLALAQAVLDVIEADPKRPIVVLVDTPSQAYGRREELLGINQALAHLAKALALARLAG 107
Query: 191 -PLISTIIGEGGSGGALAIAV-SDITLMLQYAIYSVISPEGCASILWKTSKRASDAAEAL 248
P+I + G SG LA + +D + L A+ V+ E A + +KR+ + EAL
Sbjct: 108 HPVIGLVYGRAISGAFLAHGLQADRIIALPGAMVHVMDLESMARV----TKRSVEELEAL 163
Query: 249 G 249
Sbjct: 164 A 164
>gnl|CDD|238948 cd01990, Alpha_ANH_like_I, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily. Adenine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins probably binds ATP. This
domain is about 200 amino acids long with a strongly
conserved motif SGGKD at the N terminus.
Length = 202
Score = 34.1 bits (79), Expect = 0.046
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSP 306
+A+SGG+DS++LL + + + L P
Sbjct: 3 VAFSGGVDSTLLLKAAVDALGDRVL---AVTATSPLFP 37
>gnl|CDD|224522 COG1606, COG1606, ATP-utilizing enzymes of the PP-loop superfamily
[General function prediction only].
Length = 269
Score = 33.1 bits (76), Expect = 0.16
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 251 TADKLKSI-GLINKIIKEPIAYSGGIDSSVLLDISF 285
KL+ + I + K +A+SGG+DSS+L ++
Sbjct: 3 LLSKLERLKKAIKEKKKVVVAFSGGVDSSLLAKLAK 38
>gnl|CDD|238846 cd01713, PAPS_reductase, This domain is found in phosphoadenosine
phosphosulphate (PAPS) reductase enzymes or PAPS
sulphotransferase. PAPS reductase is part of the adenine
nucleotide alpha hydrolases superfamily also including N
type ATP PPases and ATP sulphurylases. A highly modified
version of the P loop, the fingerprint peptide of
mononucleotide-binding proteins, is present in the
active site of the protein, which appears to be a
positively charged cleft containing a number of
conserved arginine and lysine residues. Although PAPS
reductase has no ATPase activity, it shows a striking
similarity to the structure of the ATP pyrophosphatase
(ATP PPase) domain of GMP synthetase, indicating that
both enzyme families have evolved from a common
ancestral nucleotide-binding fold. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP) . It is also
found in NodP nodulation protein P from Rhizobium
meliloti which has ATP sulphurylase activity (sulphate
adenylate transferase) .
Length = 173
Score = 32.4 bits (74), Expect = 0.17
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 7/38 (18%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNY---KIQFYVFHINHG 303
+++SGG DS+VLL L V ++ G
Sbjct: 4 VSFSGGKDSTVLLH----LALKALPELKPVPVIFLDTG 37
>gnl|CDD|180987 PRK07468, PRK07468, enoyl-CoA hydratase; Provisional.
Length = 262
Score = 32.3 bits (74), Expect = 0.28
Identities = 30/108 (27%), Positives = 44/108 (40%), Gaps = 24/108 (22%)
Query: 168 DAEERGQSEA--IGHSIYVMSKLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSV- 224
D R EA + + ++ L PLI I G+ GG I+V D+ + + A + +
Sbjct: 78 DRATRI-EEARRLAMMLKALNDLPKPLIGRIQGQAFGGGVGLISVCDVAIAVSGARFGLT 136
Query: 225 ----------ISP-------EGCASILWKTSKRASDAAEA--LGLTAD 253
ISP E A ++ S R DA EA LGL +
Sbjct: 137 ETRLGLIPATISPYVVARMGEANARRVF-MSARLFDAEEAVRLGLLSR 183
>gnl|CDD|226478 COG3969, COG3969, Predicted phosphoadenosine phosphosulfate
sulfotransferase [General function prediction only].
Length = 407
Score = 30.5 bits (69), Expect = 1.2
Identities = 9/34 (26%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 269 IAYSGGIDSSVLLDISFTLF-CNYKIQFYVFHIN 301
+++SGG DS ++L + + N + + V I+
Sbjct: 32 VSFSGGKDSGLMLHLVAEVARENGRDKISVLFID 65
>gnl|CDD|131094 TIGR02039, CysD, sulfate adenylyltransferase, small subunit.
Metabolic assimilation of sulfur from inorganic sulfate,
requires sulfate activation by coupling to a nucleoside,
for the production of high-energy nucleoside
phosphosulfates. This pathway appears to be similar in
all prokaryotic organisms. Activation is first achieved
through sulfation of sulfate with ATP by sulfate
adenylyltransferase (ATP sulfurylase) to produce
5'-phosphosulfate (APS), coupled by GTP hydrolysis.
Subsequently, APS is phosphorylated by an APS kinase to
produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS). In
Escherichia coli, ATP sulfurylase is a heterodimer
composed of two subunits encoded by cysD and cysN, with
APS kinase encoded by cysC. These genes are located in a
unidirectionally transcribed gene cluster, and have been
shown to be required for the synthesis of
sulfur-containing amino acids. Homologous to this E.coli
activation pathway are nodPQH gene products found among
members of the Rhizobiaceae family. These gene products
have been shown to exhibit ATP sulfurase and APS kinase
activity, yet are involved in Nod factor sulfation, and
sulfation of other macromolecules [Central intermediary
metabolism, Sulfur metabolism].
Length = 294
Score = 30.1 bits (68), Expect = 1.3
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHG 303
+ YS G DSSVLL ++ F + F + H++ G
Sbjct: 24 MLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTG 58
>gnl|CDD|237138 PRK12563, PRK12563, sulfate adenylyltransferase subunit 2;
Provisional.
Length = 312
Score = 30.1 bits (68), Expect = 1.4
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 8/46 (17%)
Query: 264 IIKEPIA--------YSGGIDSSVLLDISFTLFCNYKIQFYVFHIN 301
I++E +A YS G DS V+L ++ F + F + H++
Sbjct: 29 ILREVVAECSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVD 74
>gnl|CDD|201832 pfam01507, PAPS_reduct, Phosphoadenosine phosphosulfate reductase
family. This domain is found in phosphoadenosine
phosphosulfate (PAPS) reductase enzymes or PAPS
sulfotransferase. PAPS reductase is part of the adenine
nucleotide alpha hydrolases superfamily also including N
type ATP PPases and ATP sulphurylases. The enzyme uses
thioredoxin as an electron donor for the reduction of
PAPS to phospho-adenosine-phosphate (PAP). It is also
found in NodP nodulation protein P from Rhizobium which
has ATP sulfurylase activity (sulfate adenylate
transferase).
Length = 173
Score = 29.6 bits (67), Expect = 1.6
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGL 304
+++SGG DS VLL + V I+ G
Sbjct: 4 VSFSGGKDSLVLLHL--ASKAFPPGP--VIFIDTGY 35
>gnl|CDD|180525 PRK06310, PRK06310, DNA polymerase III subunit epsilon; Validated.
Length = 250
Score = 29.8 bits (67), Expect = 1.7
Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 14/84 (16%)
Query: 76 IREIFTDIHELHGDRNY------GDDLSIIGVLARINGESCMVIGHQKGRNVNERIIRNF 129
I E+F I + +Y G DL ++ + GE+ + + II
Sbjct: 74 IAEVFPQIKGFFKEGDYIVGHSVGFDLQVLSQESERIGETFLSKHY--------YIIDTL 125
Query: 130 GMAKPEGYRKAVRLMHIAEKFNLP 153
+AK G L +A FN+P
Sbjct: 126 RLAKEYGDSPNNSLEALAVHFNVP 149
>gnl|CDD|221998 pfam13234, rRNA_proc-arch, rRNA-processing arch domain. Mtr4 is
the essential RNA helicase, and is an exosome-activating
cofactor. This arch domain is carried in Mtr4 and Ski2
(the cytosolic homologue of Mtr4). The arch domain is
required for proper 5.8S rRNA processing, and appears to
function independently of canonical helicase activity.
Length = 266
Score = 29.5 bits (67), Expect = 2.0
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 9 EEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNK---LTEEI 51
++ KL +KIE L S S+ + S + +L + +K L EEI
Sbjct: 211 DDSFKKLLRKIEVLESRLLSNPLHNSPRLEELYDQYSKKVELEEEI 256
>gnl|CDD|181185 PRK07979, PRK07979, acetolactate synthase 3 catalytic subunit;
Validated.
Length = 574
Score = 29.8 bits (67), Expect = 2.2
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 143 LMHIAEKFNLPIFTFIDTPGAFPG 166
L + EK NLP+ + + GAFP
Sbjct: 226 LKELVEKLNLPVVSSLMGLGAFPA 249
>gnl|CDD|224259 COG1340, COG1340, Uncharacterized archaeal coiled-coil protein
[Function unknown].
Length = 294
Score = 29.3 bits (66), Expect = 2.8
Identities = 14/41 (34%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 11 PIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEI 51
I LE++IE+L Q +S + +E +LV+K +L +E+
Sbjct: 108 SIKSLEREIERLEKKQQTSVLTPEEE-RELVQKIKELRKEL 147
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 29.2 bits (66), Expect = 3.2
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 256 KSIGLINKIIKE---PI--AYSGGIDSSVLLDISFTLFCNYKIQFYVFHINHGLSP 306
+++ I + ++ P+ ++SGG DS V+LD++ F F N GL
Sbjct: 230 EAVNFIRGVAEKYNLPVSVSFSGGKDSLVVLDLAREAL----KDFKAFFNNTGLEF 281
>gnl|CDD|201451 pfam00804, Syntaxin, Syntaxin. Syntaxins are the prototype
family of SNARE proteins. They usually consist of three
main regions - a C-terminal transmembrane region, a
central SNARE domain which is characteristic of and
conserved in all syntaxins (pfam05739), and an
N-terminal domain that is featured in this entry. This
domain varies between syntaxin isoforms; in syntaxin 1A
it is found as three alpha-helices with a left-handed
twist. It may fold back on the SNARE domain to allow
the molecule to adopt a 'closed' configuration that
prevents formation of the core fusion complex - it thus
has an auto-inhibitory role. The function of syntaxins
is determined by their localisation. They are involved
in neuronal exocytosis, ER-Golgi transport and
Golgi-endosome transport, for example. They also
interact with other proteins as well as those involved
in SNARE complexes. These include vesicle coat
proteins, Rab GTPases, and tethering factors.
Length = 103
Score = 27.7 bits (62), Expect = 3.4
Identities = 12/50 (24%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 12 IIKLEKKIEKLRSLQ------FSSNIDTSKEINDLVKKCNKLTEEIYSKL 55
I K+ + +E+L+ L S+ + +E+ +L ++ +L I KL
Sbjct: 16 IQKIRQNLEELQKLHKRILTAPDSDKELREELEELTQEIKQLARAIKKKL 65
>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 = 28.7 bits (65), Expect = 4.3
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 112 VIGHQKGRNVNERIIRNFGMAKPEGYRKAVRLMHIAEKFNLPI 154
V+ + + RI+ N G PEG +AVR +A + L +
Sbjct: 63 VLPLCAEKGI--RIVTNAGALNPEGAARAVR--ELAAELGLSL 101
>gnl|CDD|201191 pfam00378, ECH, Enoyl-CoA hydratase/isomerase family. This family
contains a diverse set of enzymes including: Enoyl-CoA
hydratase. Napthoate synthase. Carnitate racemase.
3-hydoxybutyryl-CoA dehydratase. Dodecanoyl-CoA
delta-isomerase.
Length = 245
Score = 28.4 bits (64), Expect = 4.5
Identities = 17/91 (18%), Positives = 32/91 (35%), Gaps = 10/91 (10%)
Query: 187 KLKVPLISTIIGEGGSGGALAIAVSDITLMLQYAIYSV------ISPEGCASILW--KTS 238
L P+I+ + G GG D + A + + I P +
Sbjct: 88 DLPKPVIAAVNGYALGGGLELALACDYRIAADNAKFGLPEVKLGIIPGAGGTQRLPRIIG 147
Query: 239 KRASDAAEALG--LTADKLKSIGLINKIIKE 267
A+ G + A + +GL++K++ E
Sbjct: 148 VSAALEMLLTGRRIRAQEALKMGLVDKVVPE 178
>gnl|CDD|221197 pfam11739, DctA-YdbH, Dicarboxylate transport. In certain
bacterial families this protein is expressed from the
ydbH gene, and there is a suggestion that this is a form
of DctA or dicarboxylate transport protein.
Dicarboxylate transport proteins are found in aerobic
bacteria which grow on succinate or other
C4-dicarboxylates.
Length = 207
Score = 28.3 bits (64), Expect = 4.5
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 6/26 (23%)
Query: 6 LNFEEPIIKLEKKIEKLRSLQFSSNI 31
N EE +++L LRSL+ N+
Sbjct: 183 YNHEENLLQL------LRSLRIGDNL 202
>gnl|CDD|240673 cd12227, RRM_SCAF4_SCAF8, RNA recognition motif in SR-related and
CTD-associated factor 4 (SCAF4), SR-related and
CTD-associated factor 8 (SCAF8) and similar proteins.
This subfamily corresponds to the RRM in a new class of
SCAFs (SR-like CTD-associated factors), including SCAF4,
SCAF8 and similar proteins. The biological role of SCAF4
remains unclear, but it shows high sequence similarity
to SCAF8 (also termed CDC5L complex-associated protein
7, or RNA-binding motif protein 16, or CTD-binding
SR-like protein RA8). SCAF8 is a nuclear matrix protein
that interacts specifically with a highly
serine-phosphorylated form of the carboxy-terminal
domain (CTD) of the largest subunit of RNA polymerase II
(pol II). The pol II CTD plays a role in coupling
transcription and pre-mRNA processing. In addition,
SCAF8 co-localizes primarily with transcription sites
that are enriched in nuclear matrix fraction, which is
known to contain proteins involved in pre-mRNA
processing. Thus, SCAF8 may play a direct role in
coupling with both, transcription and pre-mRNA
processing, processes. SCAF8 and SCAF4 both contain a
conserved N-terminal CTD-interacting domain (CID), an
atypical RNA recognition motif (RRM), also termed RBD
(RNA binding domain) or RNPs (ribonucleoprotein domain),
and serine/arginine-rich motifs.
Length = 77
Score = 26.5 bits (59), Expect = 4.6
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 7/43 (16%)
Query: 224 VISPEGCASILWKTSKRASDAAEALGLTADKLKSIGLINKIIK 266
+I P GCA + +T R DA AL KL+++ L K IK
Sbjct: 34 MIPPRGCAYVCMET--RQ-DAHRAL----QKLRNVKLAGKKIK 69
>gnl|CDD|234468 TIGR04095, dnd_restrict_1, DNA phosphorothioation system
restriction enzyme. The DNA phosphorothioate
modification system dnd (DNA instability during
electrophoresis) recently has been shown to provide a
modification essential to a restriction system. This
protein family was detected by Partial Phylogenetic
Profiling as linked to dnd, and its members usually are
clustered with the dndABCDE genes.
Length = 451
Score = 28.5 bits (64), Expect = 4.9
Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 1/78 (1%)
Query: 13 IKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIARHPKRPYT 72
++L +KI KL + + + L+ K +L +KL P +++ + +T
Sbjct: 223 VELTEKIGKLLGNAEDDESEANGPLKMLLIKRARLIGSAQNKL-PALRDLLSKRLETSHT 281
Query: 73 LDYIREIFTDIHELHGDR 90
L Y + T+ DR
Sbjct: 282 LFYCGDGSTEDGSDEEDR 299
>gnl|CDD|191093 pfam04788, DUF620, Protein of unknown function (DUF620). Family of
uncharacterized proteins.
Length = 243
Score = 28.3 bits (63), Expect = 5.1
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 7/68 (10%)
Query: 56 TPWQISQIARHPKRPYTLDYIREIFTDIHELHGDRNYGDDLSIIGVLARINGESCMVIGH 115
TPW + A+ P RP +R + + + + +G R++GE C V+
Sbjct: 69 TPWLGAHAAKGPVRP-----LRRALQGL-DPKTTASLFANAQCVGE-KRVDGEDCFVLKL 121
Query: 116 QKGRNVNE 123
Sbjct: 122 DADPAALS 129
>gnl|CDD|223386 COG0309, HypE, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 339
Score = 28.4 bits (64), Expect = 5.4
Identities = 26/122 (21%), Positives = 41/122 (33%), Gaps = 13/122 (10%)
Query: 141 VRLMHIA------EKFNLPIFTFIDTPGAFPGIDAEERGQSEAIGHSIYVMSKLKVPLIS 194
+ L H A E N I G+ E +G + + +I
Sbjct: 3 ISLAHGAGGKLMQELINKVILPNFGRRDVNVGLANGEDAAIIDLGDGVLAFTTDPF-VID 61
Query: 195 TIIGEGGSGGALAIA--VSDITLMLQYAIY---SVISPEGCA-SILWKTSKRASDAAEAL 248
+ GG G LA+ +D+ + Y +I PEG L + K + AE
Sbjct: 62 PLFFPGGDIGKLAVHGTANDVAVSGAKPRYLSVGLILPEGLPIEDLERILKSIDEEAEEA 121
Query: 249 GL 250
G+
Sbjct: 122 GV 123
>gnl|CDD|119339 cd06558, crotonase-like, Crotonase/Enoyl-Coenzyme A (CoA) hydratase
superfamily. This superfamily contains a diverse set of
enzymes including enoyl-CoA hydratase, napthoate
synthase, methylmalonyl-CoA decarboxylase,
3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA
isomerase. Many of these play important roles in fatty
acid metabolism. In addition to a conserved structural
core and the formation of trimers (or dimers of
trimers), a common feature in this superfamily is the
stabilization of an enolate anion intermediate derived
from an acyl-CoA substrate. This is accomplished by two
conserved backbone NH groups in active sites that form
an oxyanion hole.
Length = 195
Score = 27.9 bits (63), Expect = 6.2
Identities = 23/121 (19%), Positives = 49/121 (40%), Gaps = 18/121 (14%)
Query: 158 IDTPGAFPGIDAEERGQSEAIGHSIYVMSKLKVPLISTIIGEGGS-GGALAIAVS-DITL 215
+ A E R + + + +L P+I+ + G + GG L +A++ DI +
Sbjct: 62 LKELAALSDAGEEARAFIRELQELLRALLRLPKPVIAAV--NGAALGGGLELALACDIRI 119
Query: 216 MLQYAIYSV------ISPEGCASILWKTSKRASDA-AEALGLTADKL-----KSIGLINK 263
+ A + + + P G + + A A L LT ++ +GL+++
Sbjct: 120 AAEDAKFGLPEVKLGLVPGGGGTQRL--PRLVGPARARELLLTGRRISAEEALELGLVDE 177
Query: 264 I 264
+
Sbjct: 178 V 178
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 28.4 bits (64), Expect = 6.8
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 8 FEEPIIKLEKKIEKL-RSLQFSSNIDTSKEINDLVKKCNKLTEE 50
E+ + KLE+K++ S++ S D + IND++ N+L E
Sbjct: 336 LEKNLQKLEEKLKDPSTSIELESITDLIESINDIIDAINELIRE 379
>gnl|CDD|234207 TIGR03434, ADOP, Acidobacterial duplicated orphan permease.
Members of this protein family are found, so far, only
in three species of Acidobacteria, namely Acidobacteria
bacterium Ellin345, Acidobacterium capsulatum ATCC
51196, and Solibacter usitatus Ellin6076, where they
form large paralogous families. Each protein contains
two copies of a domain called the efflux ABC transporter
permease protein (pfam02687). However, unlike other
members of that family (including LolC, FtsX, and MacB),
genes for these proteins are essentially never found
fused or adjacent to ABC transporter ATP-binding protein
(pfam00005) genes. We name this family ADOP, for
Acidobacterial Duplicated Orphan Permease, to reflect
the restricted lineage, internal duplication, lack of
associated ATP-binding cassette proteins, and permease
homology. The function is unknown.
Length = 803
Score = 28.3 bits (64), Expect = 7.0
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 90 RNYGDDLSIIGVLARINGESCMVIG 114
R +G D +++G R+NG V+G
Sbjct: 155 RRFGGDPAVVGRTIRLNGRPYTVVG 179
>gnl|CDD|182904 PRK11020, PRK11020, hypothetical protein; Provisional.
Length = 118
Score = 26.9 bits (60), Expect = 7.4
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 4 IFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVK 42
+ FE+ LE +I +L+ +Q + SKE L+K
Sbjct: 32 KYAQFEKEKATLEAEIARLKEVQ---SQKLSKEAQKLMK 67
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 27.7 bits (62), Expect = 7.9
Identities = 9/51 (17%), Positives = 21/51 (41%), Gaps = 2/51 (3%)
Query: 1 MKNIFLNFEEPIIKLEKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEI 51
++N E I ++ ++I++ S + +E+ L + E I
Sbjct: 57 LENQVSQLESEIQEIRERIKRAEEKL--SAVKDERELRALNIEIQIAKERI 105
>gnl|CDD|177791 PLN00200, PLN00200, argininosuccinate synthase; Provisional.
Length = 404
Score = 27.8 bits (62), Expect = 8.7
Identities = 12/23 (52%), Positives = 19/23 (82%), Gaps = 3/23 (13%)
Query: 259 GLINKIIKEPIAYSGGIDSSVLL 281
G +NK++ +AYSGG+D+SV+L
Sbjct: 3 GKLNKVV---LAYSGGLDTSVIL 22
>gnl|CDD|238955 cd01997, GMP_synthase_C, The C-terminal domain of GMP synthetase.
It contains two subdomains; the ATP pyrophosphatase
domain which closes to the N-termial and the
dimerization domain at C-terminal end. The ATP-PPase is
a twisted, five-stranded parallel beta-sheet sandwiched
between helical layers. It has a signature
nucleotide-binding motif, or P-loop, at the end of the
first-beta strand.The dimerization domain formed by the
C-terminal 115 amino acid for prokaryotic proteins. It
is adjacent to teh ATP-binding site of the ATP-PPase
subdomain. The largest difference between the primary
sequence of prokaryotic and eukaryotic GMP synthetase
map to the dimerization domain.Eukaryotic GMP synthetase
has several large insertions relative to prokaryotes.
Length = 295
Score = 27.5 bits (62), Expect = 9.0
Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 7/38 (18%)
Query: 269 IAYSGGIDSSVLLDISFTLFCNYKI--QFYVFHINHGL 304
+A SGG+DS+V + + I + +++GL
Sbjct: 4 LALSGGVDSTVA-----AVLLHKAIGDRLTCVFVDNGL 36
>gnl|CDD|223370 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
and biogenesis].
Length = 205
Score = 27.2 bits (61), Expect = 9.1
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 131 MAKPEGYRK--AVRLMHIAEKFNL--PIFTFIDTPGAFPG 166
AK EGYR A +L+ + EKF L P +D GA PG
Sbjct: 19 KAKKEGYRSRAAYKLLELNEKFKLFKPGMVVVDL-GAAPG 57
>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein
FtsY. There is a weak division between FtsY and SRP54;
both are GTPases. In E.coli, ftsY is an essential gene
located in an operon with cell division genes ftsE and
ftsX, but its apparent function is as the signal
recognition particle docking protein [Protein fate,
Protein and peptide secretion and trafficking].
Length = 272
Score = 27.6 bits (62), Expect = 9.1
Identities = 10/56 (17%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 16 EKKIEKLRSLQFSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIARHPKRPY 71
EK IE L+ + ++ + +++K E + L + I +P
Sbjct: 25 EKIIEALKKELKGKKVKDAELLKEILK------EYLKEILKETDLELI-VEENKPN 73
>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 27.6 bits (62), Expect = 9.9
Identities = 10/59 (16%), Positives = 24/59 (40%), Gaps = 4/59 (6%)
Query: 16 EKKIEKLRSLQ-FSSNIDTSKEINDLVKKCNKLTEEIYSKLTPWQISQIARHPKRPYTL 73
E+ IE+LR + I + + + +++ EI + + K+P+ +
Sbjct: 87 EEIIEELRKREGKKKKIKDEETVKEALRE---ALIEILRPVDKVDLPLEIPKEKKPFVI 142
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
0.320 0.138 0.404
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,592,684
Number of extensions: 1653040
Number of successful extensions: 2112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2097
Number of HSP's successfully gapped: 93
Length of query: 318
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 221
Effective length of database: 6,635,264
Effective search space: 1466393344
Effective search space used: 1466393344
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.3 bits)