RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8894
(306 letters)
>gnl|CDD|240307 PTZ00187, PTZ00187, succinyl-CoA synthetase alpha subunit;
Provisional.
Length = 317
Score = 502 bits (1295), Expect = 0.0
Identities = 211/303 (69%), Positives = 245/303 (80%), Gaps = 14/303 (4%)
Query: 16 EIYAATRPNLRLTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHL--DL 73
+ + P + + +KVICQG TGKQGTFH++QAIEYGTK+VGGV+P K G THL L
Sbjct: 15 ARSSTSAPRVWVNKNTKVICQGITGKQGTFHTEQAIEYGTKMVGGVNPKKAGTTHLKHGL 74
Query: 74 PVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHR 133
PVF TVKEA+ ATGA+A+VIYVPPP AA AI EA++AE+PL+VCITEGIPQ DMVKVKH
Sbjct: 75 PVFATVKEAKKATGADASVIYVPPPHAASAIIEAIEAEIPLVVCITEGIPQHDMVKVKHA 134
Query: 134 LIRQSKSRLIGPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGL 193
L+ Q+K+RLIGPNCPGII P +CKIGIMPGHIH++G +G+VSRSGTLTYEAV QTT VGL
Sbjct: 135 LLSQNKTRLIGPNCPGIIKPGECKIGIMPGHIHKKGKIGIVSRSGTLTYEAVAQTTAVGL 194
Query: 194 GQTLCVGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGG------------GPNAKP 241
GQ+ CVGIGGDPFNGTNFIDCL++FL DPET+GIILIGEIGG P KP
Sbjct: 195 GQSTCVGIGGDPFNGTNFIDCLKLFLNDPETEGIILIGEIGGTAEEEAAEWIKNNPIKKP 254
Query: 242 VVSFIAGITAPPGRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMK 301
VVSFIAGITAPPGRRMGHAGAIISGGKG A KI+ALE AGV V +SPAQ+G +L+ MK
Sbjct: 255 VVSFIAGITAPPGRRMGHAGAIISGGKGTAPGKIEALEAAGVRVVKSPAQLGKTMLEVMK 314
Query: 302 RLN 304
+
Sbjct: 315 KKG 317
>gnl|CDD|180194 PRK05678, PRK05678, succinyl-CoA synthetase subunit alpha;
Validated.
Length = 291
Score = 471 bits (1214), Expect = e-169
Identities = 188/288 (65%), Positives = 224/288 (77%), Gaps = 12/288 (4%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDAT 86
+ +KVI QG TGKQGTFH++Q + YGT +VGGV+PGKGG T L LPVFNTV EA +AT
Sbjct: 5 INKDTKVIVQGITGKQGTFHTEQMLAYGTNIVGGVTPGKGGTTVLGLPVFNTVAEAVEAT 64
Query: 87 GAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPN 146
GA A+VIYVPPP AA AI EA+DA + LIVCITEGIP LDM++VK L + K+RLIGPN
Sbjct: 65 GANASVIYVPPPFAADAILEAIDAGIDLIVCITEGIPVLDMLEVKAYL-ERKKTRLIGPN 123
Query: 147 CPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPF 206
CPGII P +CKIGIMPGHIH++G VGVVSRSGTLTYEAV Q T +G GQ+ CVGIGGDP
Sbjct: 124 CPGIITPGECKIGIMPGHIHKKGRVGVVSRSGTLTYEAVAQLTDLGFGQSTCVGIGGDPI 183
Query: 207 NGTNFIDCLEVFLKDPETKGIILIGEIGGGPNA-----------KPVVSFIAGITAPPGR 255
NGTNFID LE F +DPET+ I++IGEIGG KPVV +IAG+TAPPG+
Sbjct: 184 NGTNFIDVLEAFEEDPETEAIVMIGEIGGSAEEEAAEYIKANVTKPVVGYIAGVTAPPGK 243
Query: 256 RMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKRL 303
RMGHAGAIISGGKG A++K +ALE AGV V R+P+++G L + +K L
Sbjct: 244 RMGHAGAIISGGKGTAEEKKEALEAAGVKVARTPSEIGELLKEVLKGL 291
>gnl|CDD|223152 COG0074, SucD, Succinyl-CoA synthetase, alpha subunit [Energy
production and conversion].
Length = 293
Score = 430 bits (1108), Expect = e-153
Identities = 176/289 (60%), Positives = 218/289 (75%), Gaps = 13/289 (4%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDAT 86
L +KVI QG TGKQGTFH++Q + YGTK+VGGV+PGKGG+T L LPVFNTV+EA T
Sbjct: 5 LNKDTKVIVQGITGKQGTFHTEQMLAYGTKIVGGVTPGKGGQTILGLPVFNTVEEAVKET 64
Query: 87 GAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPN 146
GA A+VI+VPPP AA AI EA+DA + L+V ITEGIP LDM+++K R+ +RLIGPN
Sbjct: 65 GANASVIFVPPPFAADAILEAIDAGIKLVVIITEGIPVLDMLELKRYA-REKGTRLIGPN 123
Query: 147 CPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPF 206
CPGII P +CKIGIMPG+I++ G +G+VSRSGTLTYEAV Q T+ GLGQ+ +GIGGDP
Sbjct: 124 CPGIITPGECKIGIMPGNIYKPGNIGIVSRSGTLTYEAVSQLTEAGLGQSTAIGIGGDPI 183
Query: 207 NGTNFIDCLEVFLKDPETKGIILIGEIGGGPNA------------KPVVSFIAGITAPPG 254
GT+FID LE+F DPET+ I++IGEIGG KPVV++IAG TAP G
Sbjct: 184 PGTSFIDALEMFEADPETEAIVMIGEIGGPAEEEAAEYIKANATRKPVVAYIAGRTAPEG 243
Query: 255 RRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKRL 303
+RMGHAGAI+SGGKG A+ KI ALE AGV V +PA++G LL+ +K
Sbjct: 244 KRMGHAGAIVSGGKGTAESKIAALEAAGVKVAETPAELGELLLEVLKGR 292
>gnl|CDD|215066 PLN00125, PLN00125, Succinyl-CoA ligase [GDP-forming] subunit
alpha.
Length = 300
Score = 422 bits (1085), Expect = e-150
Identities = 201/299 (67%), Positives = 236/299 (78%), Gaps = 12/299 (4%)
Query: 19 AATRPNLRLTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNT 78
A+ P + + ++VICQG TGK GTFH++QAIEYGTK+VGGV+P KGG HL LPVFNT
Sbjct: 1 ASPPPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNT 60
Query: 79 VKEARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQS 138
V EA+ T A A+VIYVPPP AA AI EA++AE+ L+VCITEGIPQ DMV+VK L RQS
Sbjct: 61 VAEAKAETKANASVIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNRQS 120
Query: 139 KSRLIGPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLC 198
K+RLIGPNCPGII P +CKIGIMPG+IH+ G +G+VSRSGTLTYEAV QTT VGLGQ+ C
Sbjct: 121 KTRLIGPNCPGIIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTC 180
Query: 199 VGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGGGP------------NAKPVVSFI 246
VGIGGDPFNGTNF+DCLE F+KDP+T+GIILIGEIGG KPVV+FI
Sbjct: 181 VGIGGDPFNGTNFVDCLEKFVKDPQTEGIILIGEIGGTAEEDAAAFIKESGTEKPVVAFI 240
Query: 247 AGITAPPGRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKRLNL 305
AG+TAPPGRRMGHAGAI+SGGKG AQDKI AL +AGV V SPA++G +L+ K L
Sbjct: 241 AGLTAPPGRRMGHAGAIVSGGKGTAQDKIKALREAGVTVVESPAKIGVAMLEVFKERGL 299
>gnl|CDD|130091 TIGR01019, sucCoAalpha, succinyl-CoA synthetase, alpha subunit.
This model describes succinyl-CoA synthetase alpha
subunits but does not discriminate between GTP-specific
and ATP-specific reactions. The model is designated as
subfamily rather than equivalog for that reason. ATP
citrate lyases appear to form an outgroup [Energy
metabolism, TCA cycle].
Length = 286
Score = 413 bits (1064), Expect = e-147
Identities = 182/283 (64%), Positives = 216/283 (76%), Gaps = 12/283 (4%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDAT 86
L +KVI QG TG QG+FH++Q + YGT +VGGV+PGKGG T L LPVF++VKEA + T
Sbjct: 3 LDKDTKVIVQGITGSQGSFHTEQMLAYGTNIVGGVTPGKGGTTVLGLPVFDSVKEAVEET 62
Query: 87 GAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPN 146
GA A+VI+VP P AA AI EA+DA + LIVCITEGIP DM+KVK + S +RLIGPN
Sbjct: 63 GANASVIFVPAPFAADAIFEAIDAGIELIVCITEGIPVHDMLKVKRYMEE-SGTRLIGPN 121
Query: 147 CPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPF 206
CPGII P +CKIGIMPGHIH+ G VG+VSRSGTLTYEAVHQ T+ G GQ+ CVGIGGDP
Sbjct: 122 CPGIITPGECKIGIMPGHIHKPGNVGIVSRSGTLTYEAVHQLTKAGFGQSTCVGIGGDPV 181
Query: 207 NGTNFIDCLEVFLKDPETKGIILIGEIGGGPN-----------AKPVVSFIAGITAPPGR 255
NGT+FID LE F KDPET+ I++IGEIGG +KPVV FIAG TAPPG+
Sbjct: 182 NGTSFIDVLEAFEKDPETEAIVMIGEIGGSAEEEAADFIKQNMSKPVVGFIAGATAPPGK 241
Query: 256 RMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLK 298
RMGHAGAIISGGKG A+ KI+ALE AGV V +SP+ +G L +
Sbjct: 242 RMGHAGAIISGGKGTAESKIEALEAAGVTVVKSPSDIGELLAE 284
>gnl|CDD|215988 pfam00549, Ligase_CoA, CoA-ligase. This family includes the CoA
ligases Succinyl-CoA synthetase alpha and beta chains,
malate CoA ligase and ATP-citrate lyase. Some members of
the family utilise ATP others use GTP.
Length = 128
Score = 114 bits (288), Expect = 7e-32
Identities = 38/128 (29%), Positives = 50/128 (39%), Gaps = 17/128 (13%)
Query: 174 VSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEI 233
+ GTL EA+ G G + +GGD F T ID L++ DPE K I+L +
Sbjct: 1 LVNGGTLAMEAMDLIKLAGGGPHNFIDLGGDAFTPTTRIDALKLEAADPEVKVILLDIVL 60
Query: 234 GGGPNA-----------------KPVVSFIAGITAPPGRRMGHAGAIISGGKGGAQDKID 276
G G PVV+ + G A P R A A+ G A
Sbjct: 61 GYGACEDPAGGLLKAIKEARARELPVVARVCGTEADPQGREEQAKALAESGVLIASSNNQ 120
Query: 277 ALEKAGVI 284
AL AG +
Sbjct: 121 ALRAAGAV 128
>gnl|CDD|202320 pfam02629, CoA_binding, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 96
Score = 111 bits (280), Expect = 5e-31
Identities = 40/96 (41%), Positives = 53/96 (55%), Gaps = 2/96 (2%)
Query: 28 TSKSKVICQGFTGK--QGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDA 85
+KV G G QG +H Q + YG K+V GV+P KGG +PV+ +V E +
Sbjct: 1 DKDTKVAVIGAGGLGIQGLYHFIQLLGYGIKMVFGVNPRKGGTEVGGIPVYKSVDELEED 60
Query: 86 TGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEG 121
TG + VI VP P A +AI E +DA + IV IT G
Sbjct: 61 TGVDVAVITVPAPFAQEAIDELVDAGIKGIVNITPG 96
>gnl|CDD|214881 smart00881, CoA_binding, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 100
Score = 104 bits (263), Expect = 2e-28
Identities = 43/99 (43%), Positives = 56/99 (56%), Gaps = 3/99 (3%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAI---EYGTKVVGGVSPGKGGKTHLDLPVFNTVKEAR 83
L + V G +G G+F EYGTK VGGV PGK G +PV+++V EA
Sbjct: 2 LNPNTSVAVVGASGNLGSFGLAVMRNLLEYGTKFVGGVYPGKVGPKVDGVPVYDSVAEAP 61
Query: 84 DATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGI 122
+ TG + VI+VP A AI EA++A + IV ITEGI
Sbjct: 62 EETGVDVAVIFVPAEAAPDAIDEAIEAGIKGIVVITEGI 100
>gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase.
Length = 608
Score = 88.7 bits (220), Expect = 1e-19
Identities = 80/267 (29%), Positives = 122/267 (45%), Gaps = 39/267 (14%)
Query: 57 VVGGVSPGKG-------GKTHLDLPVFNTVKEARDATGAEATVI--YVPPPGAAKAIHEA 107
V G ++PG G+ + +PV +++ A A A V + AA + EA
Sbjct: 40 VAGIINPGSEGFQKLFFGQEEIAIPVHGSIEAACKAH-PTADVFINFASFRSAAASSMEA 98
Query: 108 LDAE-MPLIVCITEGIPQLDMVKVKHRLI--RQSKSRLIGPNCPGIIAPEQCKIG----- 159
L + ++ I EG+P+ D K + R + +IGP G I KIG
Sbjct: 99 LKQPTIRVVAIIAEGVPESD---TKQLIAYARANNKVVIGPATVGGIQAGAFKIGDTAGT 155
Query: 160 ---IMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNGTNFIDCLE 216
I+ +++ G VG VS+SG ++ E + +V G + IGGD F G+ D +
Sbjct: 156 LDNIIQCKLYRPGSVGFVSKSGGMSNEMYNVIARVTDGIYEGIAIGGDVFPGSTLSDHVL 215
Query: 217 VFLKDPETKGIILIGEIGG------------GPNAKPVVSFIAGITA---PPGRRMGHAG 261
F P+ K I+++GE+GG G +KPVV++++G A + GHAG
Sbjct: 216 RFNNIPQIKMIVVLGELGGRDEYSLVEALKQGKVSKPVVAWVSGTCARLFKSEVQFGHAG 275
Query: 262 AIISGGKGGAQDKIDALEKAGVIVTRS 288
A G AQ K AL+ AG IV S
Sbjct: 276 AKSGGDMESAQAKNKALKDAGAIVPTS 302
>gnl|CDD|205785 pfam13607, Succ_CoA_lig, Succinyl-CoA ligase like flavodoxin
domain. This domain contains the catalytic domain from
Succinyl-CoA ligase alpha subunit and other related
enzymes. A conserved histidine is involved in phosphoryl
transfer.
Length = 138
Score = 54.4 bits (132), Expect = 2e-09
Identities = 40/141 (28%), Positives = 59/141 (41%), Gaps = 26/141 (18%)
Query: 168 RGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNG--TNFIDCLEVFLKDPETK 225
G V +VS+SG L + + G+G + V +G N +F D L+ DPET+
Sbjct: 1 PGGVALVSQSGALGAALLDWAARRGIGFSHFVSLG----NEADVDFADLLDYLADDPETR 56
Query: 226 GIIL-IGEIGGGPN----------AKPVVSFIAGITAPPGRRMG--HAGAIISGGKGGAQ 272
I+L + I G KPVV +G + G R H GA+ G+
Sbjct: 57 VILLYLEGIRDGRRFLRAARRAARKKPVVVLKSGRS-EAGARAAASHTGAL-----AGSD 110
Query: 273 DKIDA-LEKAGVIVTRSPAQM 292
DA +AGVI ++
Sbjct: 111 AVYDAAFRQAGVIRVDDLEEL 131
>gnl|CDD|223972 COG1042, COG1042, Acyl-CoA synthetase (NDP forming) [Energy
production and conversion].
Length = 598
Score = 57.4 bits (139), Expect = 3e-09
Identities = 62/267 (23%), Positives = 107/267 (40%), Gaps = 41/267 (15%)
Query: 51 IEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDA 110
+EYG + V+P L + + +V + DA + VI VP + +HE +
Sbjct: 34 LEYGQGKIYPVNPKY--DEVLGVKAYTSVADLPDA--PDLAVIVVPAKVVPEIVHELGEK 89
Query: 111 EMPLIVCITEGIPQL-----DMVKVKHRLIRQSKSRLIGPNCPGIIAPEQ---CKIGIMP 162
+ + I+ G + ++ K R+ R+IGPNC G+I P +
Sbjct: 90 GVKGAIVISAGFREAGEEGMELEKELVEAARKYGMRIIGPNCLGLINPIIGLNATFDPVF 149
Query: 163 GHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIG--GDPFNGTNFIDCLEVFLK 220
G G VS+SG +++ + + G+G ++ V +G D + D LE
Sbjct: 150 GLGRGGG-GAFVSQSGAVSFAILDWANEDGMGFSIKVSLGNAAD----RDESDLLEYLAD 204
Query: 221 DPETKGIILIGEIGGGPNA-------------KPVVSFIAGITAPPGRRMGHAGAIISGG 267
DP TK I L E G + KP+++ AG + + ++G
Sbjct: 205 DPRTKAIGLYIE--GVKDGRKFLNAARAAERKKPIIALKAGRSEAGAKAAASHTGSLAG- 261
Query: 268 KGGAQDKI--DALEKAGVIVTRSPAQM 292
D+ A ++AGVI S ++
Sbjct: 262 ----SDEAYDAAFKQAGVIRVESIEEL 284
>gnl|CDD|131764 TIGR02717, AcCoA-syn-alpha, acetyl coenzyme A synthetase (ADP
forming), alpha domain. Although technically
reversible, it is believed that this group of
ADP-dependent acetyl-CoA synthetases (ACS) act in the
direction of acetate and ATP production in the organisms
in which it has been characterized. In most species this
protein exists as a fused alpha-beta domain polypeptide.
In Pyrococcus and related species, however the domains
exist as separate polypeptides. This model represents
the alpha (N-terminal) domain. In Pyrococcus and related
species there appears to have been the development of a
paralogous family such that four other proteins are
close relatives. In reference , one of these (along with
its beta-domain partner) was characterized as ACS-II
showing specificity for phenylacetyl-CoA. This model has
been constructed to exclude these non-ACS-I paralogs.
This may result in new, authentic ACS-I sequences
falling below the trusted cutoff.
Length = 447
Score = 56.2 bits (136), Expect = 7e-09
Identities = 63/242 (26%), Positives = 101/242 (41%), Gaps = 31/242 (12%)
Query: 67 GKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQL- 125
L + + +V E D + VI VP + + E + + V IT G ++
Sbjct: 46 AGEILGVKAYPSVLEIPDPV--DLAVIVVPAKYVPQVVEECGEKGVKGAVVITAGFKEVG 103
Query: 126 -DMVKVKHRLI---RQSKSRLIGPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLT 181
+ +++ L+ R+ RL+GPNC GII + ++G + +S+SG L
Sbjct: 104 EEGAELEQELVEIARKYGMRLLGPNCLGIINTHIKLNATFAPTMPKKGGIAFISQSGALL 163
Query: 182 YEAVHQTTQVGLGQTLCVGIGGDPFNGT--NFIDCLEVFLKDPETKGIILIGE-IGGGPN 238
+ + G+G + V +G N + D LE DP+TK I+L E I G
Sbjct: 164 TALLDWAEKNGVGFSYFVSLG----NKADIDESDLLEYLADDPDTKVILLYLEGIKDGRK 219
Query: 239 ----------AKPVVSFIAGITAPPGRR--MGHAGAIISGGKGGAQDKIDALEKAGVIVT 286
KP+V +G + G + H GA+ G A D A ++AGVI
Sbjct: 220 FLKTAREISKKKPIVVLKSGTS-EAGAKAASSHTGAL--AGSDEAYD--AAFKQAGVIRA 274
Query: 287 RS 288
S
Sbjct: 275 DS 276
Score = 28.0 bits (63), Expect = 6.9
Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 18/82 (21%)
Query: 199 VGIGGDPFNGTNFIDCLEVFLKDPETKGIILIG----------------EIGGGPNAKPV 242
V + GD + L+ +D G++++ E N KPV
Sbjct: 347 VDVLGDA-TPERYAKALKTVAEDENVDGVVVVLTPTAMTDPEEVAKGIIEGAKKSNEKPV 405
Query: 243 V-SFIAGITAPPGRRMGHAGAI 263
V F+ G + P +R+ I
Sbjct: 406 VAGFMGGKSVDPAKRILEENGI 427
>gnl|CDD|180395 PRK06091, PRK06091, membrane protein FdrA; Validated.
Length = 555
Score = 38.5 bits (90), Expect = 0.004
Identities = 36/148 (24%), Positives = 69/148 (46%), Gaps = 11/148 (7%)
Query: 88 AEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNC 147
A +I V AA+ +ALD + +++ ++ + D +++K R R+ ++GP+C
Sbjct: 118 ANLALISVAGEYAAELAEQALDRNLNVMM-FSDNVTLEDEIRLKTR-AREKGLLVMGPDC 175
Query: 148 -PGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPF 206
+IA + ++ G +GV+ SGT E Q G G T +G+GG
Sbjct: 176 GTAMIA----GTPLAFANVMPEGNIGVIGASGTGIQELCSQIALAGEGITHAIGLGGRDL 231
Query: 207 N----GTNFIDCLEVFLKDPETKGIILI 230
+ G + + LE+ D +++ I +
Sbjct: 232 SAEVGGISALTALEMLSADEKSEVIAFV 259
>gnl|CDD|215861 pfam00330, Aconitase, Aconitase family (aconitate hydratase).
Length = 464
Score = 30.1 bits (68), Expect = 1.4
Identities = 22/71 (30%), Positives = 29/71 (40%), Gaps = 15/71 (21%)
Query: 186 HQTTQVGLGQTLCVGIGGDPFNGTNFIDCLEVF------LKDPETKGIILIGEIGGGPNA 239
H T GLG L G+GG + V K P+ GI L G++ GG A
Sbjct: 131 HTPTHGGLGA-LAFGVGG--------SEAEHVLAGQPWEQKKPKVMGIKLTGKLNGGITA 181
Query: 240 KPVVSFIAGIT 250
K V+ + G
Sbjct: 182 KDVILKVIGKL 192
>gnl|CDD|216389 pfam01251, Ribosomal_S7e, Ribosomal protein S7e.
Length = 189
Score = 29.2 bits (66), Expect = 2.2
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 68 KTHLDLPVFNTVKEARDATGAEATVIYVPPP--GAAKAIHEALDAEM 112
K L + KE G +A VI+VP P A + I + L E+
Sbjct: 33 KAELRDLQITSAKEIEVGGGKKAVVIFVPVPQLKAYRKIQQRLVREL 79
>gnl|CDD|130816 TIGR01755, flav_wrbA, NAD(P)H:quinone oxidoreductase, type IV.
This model represents a protein, WrbA, related to and
slightly larger than flavodoxin. It was just shown, in
E. coli and Archaeoglobus fulgidus (and previously for
some eukaryotic homologs) to act as fourth type of
NAD(P)H:quinone oxidoreductase. In E. coli, this protein
was earlier reported to be produced during stationary
phase, bind to the trp repressor, and make trp operon
repression more efficient. WrbA does not interact with
the trp operator by itself. Members are found in species
in which homologs of the E. coli trp operon repressor
TrpR are not detected [Energy metabolism, Electron
transport].
Length = 197
Score = 29.1 bits (65), Expect = 2.4
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 3/36 (8%)
Query: 82 ARDATGAEATVIYVP---PPGAAKAIHEALDAEMPL 114
AR+ GAE V VP P A+ H D P+
Sbjct: 25 AREVDGAEVVVKRVPETVPEEVAEKSHGKTDQTAPV 60
>gnl|CDD|224997 COG2086, FixA, Electron transfer flavoprotein, beta subunit [Energy
production and conversion].
Length = 260
Score = 29.2 bits (66), Expect = 2.7
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 12/76 (15%)
Query: 48 KQAIEYGTKVVGG-VSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHE 106
KQAI+ T VG ++ L P V + G + TV G E
Sbjct: 119 KQAIDGDTGQVGPLLA------ELLGWPQVTYVSKIEIVDGGKVTVERELEGGL-----E 167
Query: 107 ALDAEMPLIVCITEGI 122
++A +P +V + I
Sbjct: 168 TVEAPLPAVVTVDLRI 183
>gnl|CDD|153134 cd01584, AcnA_Mitochondrial, Aconitase catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. Mitochondrial aconitase A catalytic domain.
Aconitase (also known as aconitate hydratase and citrate
hydro-lyase) catalyzes the reversible isomerization of
citrate and isocitrate as part of the TCA cycle.
Cis-aconitate is formed as an intermediary product
during the course of the reaction. In eukaryotes two
isozymes of aconitase are known to exist: one found in
the mitochondrial matrix and the other found in the
cytoplasm. This is the mitochondrial form. The
mitochondrial product is coded by a nuclear gene. Most
members of this subfamily are mitochondrial but there
are some bacterial members.
Length = 412
Score = 29.3 bits (66), Expect = 2.8
Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 19/79 (24%)
Query: 192 GLGQTLCVGIGGDPFNGTNFIDCLEVF------LKDPETKGIILIGEIGGGPNAKPVVSF 245
GLG + +G+GG D ++V LK P+ G+ L G++ G + K V+
Sbjct: 106 GLG-GIAIGVGG--------ADAVDVMAGIPWELKCPKVIGVKLTGKLSGWTSPKDVILK 156
Query: 246 IAGITAPPGRRMGHAGAII 264
+AGI G GAI+
Sbjct: 157 VAGILTVK----GGTGAIV 171
>gnl|CDD|234117 TIGR03135, malonate_mdcG, malonate decarboxylase
holo-[acyl-carrier-protein] synthase. Malonate
decarboxylase, like citrate lyase, has a unique acyl
carrier protein subunit with a prosthetic group derived
from, and distinct from, coenzyme A. Members of this
protein family are the phosphoribosyl-dephospho-CoA
transferase specific to the malonate decarboxylase
system. This enzyme can also be designated holo-ACP
synthase (2.7.7.61). The corresponding component of the
citrate lyase system, CitX, shows little or no sequence
similarity to this family [Energy metabolism, Other].
Length = 202
Score = 28.8 bits (65), Expect = 3.1
Identities = 14/46 (30%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 98 PGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLI-RQSKSRL 142
P A A L A PL+V V + RL K RL
Sbjct: 20 PAAQPAWAAWLAAGRPLVVRRAAPADA-GQVALGLRLPGAARKQRL 64
>gnl|CDD|233362 TIGR01340, aconitase_mito, aconitate hydratase, mitochondrial.
This model represents mitochondrial forms of the TCA
cycle enzyme aconitate hydratase, also known as
aconitase and citrate hydro-lyase [Energy metabolism,
TCA cycle].
Length = 745
Score = 29.1 bits (65), Expect = 3.2
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 19/85 (22%)
Query: 186 HQTTQVGLGQTLCVGIGGDPFNGTNFIDCLEVF------LKDPETKGIILIGEIGGGPNA 239
H GLG T+ +G+GG D ++ LK P+ G+ L G++ G +
Sbjct: 157 HTPNAGGLG-TIAIGVGG--------ADAVDALAGAPWELKAPKILGVKLTGKLNGWTSP 207
Query: 240 KPVVSFIAGITAPPGRRMGHAGAII 264
K ++ +AG+ G G I+
Sbjct: 208 KDIILKLAGLLTV----RGGTGYIV 228
>gnl|CDD|179647 PRK03767, PRK03767, NAD(P)H:quinone oxidoreductase; Provisional.
Length = 200
Score = 28.3 bits (64), Expect = 3.4
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 82 ARDATGAEATVIYVP---PPGAAKAIHEALDAEMP 113
AR+ GAE T+ VP P AK D P
Sbjct: 26 AREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAP 60
>gnl|CDD|222088 pfam13380, CoA_binding_2, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 115
Score = 27.1 bits (61), Expect = 5.8
Identities = 21/104 (20%), Positives = 43/104 (41%), Gaps = 10/104 (9%)
Query: 48 KQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEA 107
+ + G V+ V+P G+ L P + ++ + + + ++ PP + + EA
Sbjct: 21 RYLLAAGYPVIP-VNPK--GEEILGEPAYASLADIPEP--VDLVDVFRPPEAVPEIVEEA 75
Query: 108 LDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGII 151
L + G+ + L R + R++GPNC G+
Sbjct: 76 LALGAKAVWLQP-GVENEEAAA----LARAAGIRVVGPNCLGVE 114
>gnl|CDD|235022 PRK02271, PRK02271, methylenetetrahydromethanopterin reductase;
Provisional.
Length = 325
Score = 27.6 bits (62), Expect = 7.9
Identities = 25/83 (30%), Positives = 32/83 (38%), Gaps = 32/83 (38%)
Query: 239 AKPVVSFIAGITAPP-----GRRMGHAGAI---ISGGKGGA------------------- 271
AKPVV+FIA + PP G + I +S G G
Sbjct: 226 AKPVVAFIAAGSPPPVLERHGIDLEAVEKIGEALSKGDFGEAFGAVTDEMIDAFSIAGTP 285
Query: 272 ---QDKIDALEKAGV--IVTRSP 289
+KI+AL + GV IV SP
Sbjct: 286 EDVVEKIEALLEMGVTQIVAGSP 308
>gnl|CDD|237877 PRK14976, PRK14976, 5'-3' exonuclease; Provisional.
Length = 281
Score = 27.6 bits (62), Expect = 8.0
Identities = 21/92 (22%), Positives = 37/92 (40%), Gaps = 25/92 (27%)
Query: 3 FVAIRNNSSKVAEEIYAATRPNLRLTSKSKVICQGFTGKQGTFHS--------------- 47
+A + + + IY++ + L+L +++ + K+GT H
Sbjct: 120 SLAKKLSKQNITVLIYSSDKDLLQLVNENTDVLL---KKKGTSHFILNTNNFFELYGIEP 176
Query: 48 KQAIEYGTKVVGGVS------PGKGGKTHLDL 73
KQ I+Y +VG S G G KT + L
Sbjct: 177 KQIIDY-KGLVGDSSDNIKGVKGIGPKTAIKL 207
>gnl|CDD|233660 TIGR01970, DEAH_box_HrpB, ATP-dependent helicase HrpB. This model
represents HrpB, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria,
but also in a few species of other lineages. The member
from Rhizobium meliloti has been designated HelO. HrpB
is typically about 800 residues in length, while its
paralog HrpA (TIGR01967), also uncharacterized, is about
1300 amino acids long. Related characterized eukarotic
proteins are RNA helicases associated with pre-mRNA
processing [Unknown function, Enzymes of unknown
specificity].
Length = 819
Score = 27.8 bits (62), Expect = 8.1
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 73 LPVFNTVKEARDATGAEATVIYVPPPGAAK 102
LP+ + RDA A V+ PPGA K
Sbjct: 1 LPIHAVLPALRDALAAHPQVVLEAPPGAGK 30
>gnl|CDD|132934 cd07023, S49_Sppa_N_C, Signal peptide peptidase A (SppA), a serine
protease, has catalytic Ser-Lys dyad. Signal peptide
peptidase A (SppA; Peptidase S49; Protease IV): SppA is
found in all three domains of life and is involved in
the cleavage of signal peptides after their removal from
the precursor proteins by signal peptidases. This
subfamily contains members with either a single domain
(sometimes referred to as 36K type), such as sohB
peptidase, protein C and archaeal signal peptide
peptidase, or an amino-terminal domain in addition to
the carboxyl-terminal protease domain that is conserved
in all the S49 family members (sometimes referred to as
67K type), similar to E. coli and Arabidopsis thaliana
SppA peptidases. Site-directed mutagenesis and sequence
analysis have shown these SppAs to be serine proteases.
The predicted active site serine for members in this
family occurs in a transmembrane domain. Mutagenesis
studies also suggest that the catalytic center comprises
a Ser-Lys dyad and not the usual Ser-His-Asp catalytic
triad found in the majority of serine proteases.
Interestingly, the single membrane spanning E. coli SppA
carries out catalysis using a Ser-Lys dyad with the
serine located in the conserved carboxy-terminal
protease domain and the lysine in the non-conserved
amino-terminal domain.
Length = 208
Score = 27.5 bits (62), Expect = 8.2
Identities = 15/69 (21%), Positives = 23/69 (33%), Gaps = 20/69 (28%)
Query: 201 IGGDPFNGTNFIDCLEVFLKDPETKGIILIGEI---GGGPNA---------------KPV 242
G + I+ L +D K ++L I GG A KPV
Sbjct: 12 SDGGGIGADSLIEQLRKAREDDSVKAVVL--RINSPGGSVVASEEIYREIRRLRKAKKPV 69
Query: 243 VSFIAGITA 251
V+ + + A
Sbjct: 70 VASMGDVAA 78
>gnl|CDD|113491 pfam04723, GRDA, Glycine reductase complex selenoprotein A. Found
in clostridia, this protein contains one active site
selenocysteine and catalyzes the reductive deamination
of glycine, which is coupled to the esterification of
orthophosphate resulting in the formation of ATP. A
member of this family may also exist in Treponema
denticola.
Length = 150
Score = 26.8 bits (59), Expect = 9.9
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 71 LDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDAE 111
+DL VK+A ++ GAE V+ + GAA+A L AE
Sbjct: 49 MDLENQQKVKDATESIGAENLVVLL---GAAEAESAGLAAE 86
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
0.318 0.138 0.410
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,860,374
Number of extensions: 1567388
Number of successful extensions: 1560
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1541
Number of HSP's successfully gapped: 41
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.3 bits)