RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025927
(246 letters)
>gnl|CDD|215192 PLN02334, PLN02334, ribulose-phosphate 3-epimerase.
Length = 229
Score = 341 bits (878), Expect = e-120
Identities = 119/195 (61%), Positives = 139/195 (71%), Gaps = 6/195 (3%)
Query: 51 DKFSKSDIIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDAL 110
DKFSK+D I++PSILSA+FA L E+ K V AG DW+HVDVMDG FVPN+TIGP VV AL
Sbjct: 1 DKFSKNDAIIAPSILSADFANLAEEAKRVLDAGADWLHVDVMDGHFVPNLTIGPPVVKAL 60
Query: 111 RPVTDLPLDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGV 170
R TD PLD HLM+ PE VPDF KAGA I + H EQ+STIHLHR + QIK G KAGV
Sbjct: 61 RKHTDAPLDCHLMVTNPEDYVPDFAKAGASIFTFHIEQASTIHLHRLIQQIKSAGMKAGV 120
Query: 171 VLNPATSLSAIECVLDV--VDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPW 228
VLNP T + A+E V++ VD+VL+MSV PGFGGQSFI S + K+ LR+ E
Sbjct: 121 VLNPGTPVEAVEPVVEKGLVDMVLVMSVEPGFGGQSFIPSMMDKVRALRKKYPEL----D 176
Query: 229 IEVDGGVGPKNAYKV 243
IEVDGGVGP K
Sbjct: 177 IEVDGGVGPSTIDKA 191
>gnl|CDD|235515 PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated.
Length = 220
Score = 315 bits (810), Expect = e-110
Identities = 113/186 (60%), Positives = 146/186 (78%), Gaps = 2/186 (1%)
Query: 58 IIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLP 117
++++PSILSA+FA+LGE+VKAVE AG DWIHVDVMDG FVPN+TIGP VV+A+R VT LP
Sbjct: 4 VLIAPSILSADFARLGEEVKAVEAAGADWIHVDVMDGHFVPNLTIGPPVVEAIRKVTKLP 63
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
LDVHLM+ P++ VPDF KAGADI++ H E ++ H+HR L IK G KAG+VLNPAT
Sbjct: 64 LDVHLMVENPDRYVPDFAKAGADIITFHVE--ASEHIHRLLQLIKSAGIKAGLVLNPATP 121
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGP 237
L +E VLD++DLVL+MSVNPGFGGQ FI ++KI +LR++ E+G++ IEVDGG+
Sbjct: 122 LEPLEDVLDLLDLVLLMSVNPGFGGQKFIPEVLEKIRELRKLIDERGLDILIEVDGGINA 181
Query: 238 KNAYKV 243
N +
Sbjct: 182 DNIKEC 187
>gnl|CDD|238244 cd00429, RPE, Ribulose-5-phosphate 3-epimerase (RPE). This enzyme
catalyses the interconversion of D-ribulose 5-phosphate
(Ru5P) into D-xylulose 5-phosphate, as part of the
Calvin cycle (reductive pentose phosphate pathway) in
chloroplasts and in the oxidative pentose phosphate
pathway. In the Calvin cycle Ru5P is phosphorylated by
phosphoribulose kinase to ribulose-1,5-bisphosphate,
which in turn is used by RubisCO
(ribulose-1,5-bisphosphate carboxylase/oxygenase) to
incorporate CO2 as the central step in carbohydrate
synthesis.
Length = 211
Score = 311 bits (800), Expect = e-108
Identities = 107/185 (57%), Positives = 133/185 (71%), Gaps = 2/185 (1%)
Query: 59 IVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPL 118
++PSILSA+FA LGE++K +E AG DWIH+DVMDG FVPN+T GP VV ALR TDLPL
Sbjct: 1 KIAPSILSADFANLGEELKRLEEAGADWIHIDVMDGHFVPNLTFGPPVVKALRKHTDLPL 60
Query: 119 DVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATSL 178
DVHLM+ PE+ + F KAGADI++ H E +T HLHRT+ IK+LG KAGV LNP T +
Sbjct: 61 DVHLMVENPERYIEAFAKAGADIITFHAE--ATDHLHRTIQLIKELGMKAGVALNPGTPV 118
Query: 179 SAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGPK 238
+E LD VDLVL+MSVNPGFGGQ FI ++KI LR + E +N IEVDGG+ +
Sbjct: 119 EVLEPYLDEVDLVLVMSVNPGFGGQKFIPEVLEKIRKLRELIPENNLNLLIEVDGGINLE 178
Query: 239 NAYKV 243
+
Sbjct: 179 TIPLL 183
>gnl|CDD|216142 pfam00834, Ribul_P_3_epim, Ribulose-phosphate 3 epimerase family.
This enzyme catalyzes the conversion of D-ribulose
5-phosphate into D-xylulose 5-phosphate.
Length = 201
Score = 297 bits (762), Expect = e-103
Identities = 117/185 (63%), Positives = 149/185 (80%), Gaps = 2/185 (1%)
Query: 59 IVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPL 118
++PS+LSA+FA LGE++KAVE AG DW+HVDVMDG FVPN+TIGPLVV+ALRP+T+LPL
Sbjct: 1 KIAPSLLSADFAHLGEEIKAVENAGADWLHVDVMDGHFVPNLTIGPLVVEALRPLTELPL 60
Query: 119 DVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATSL 178
DVHLM+ EP++ +PDF +AGADI+S H E ++ H HRT+ IK+ GAKAG+VLNPAT L
Sbjct: 61 DVHLMVEEPDRIIPDFAEAGADIISFHAE--ASDHPHRTIQLIKEAGAKAGLVLNPATPL 118
Query: 179 SAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGPK 238
AIE +LD +DLVL+MSVNPGFGGQSFI S + KI +R+M E G++ IEVDGGV
Sbjct: 119 DAIEYLLDDLDLVLLMSVNPGFGGQSFIPSVLPKIRKVRKMIDEGGLDTLIEVDGGVNLD 178
Query: 239 NAYKV 243
N ++
Sbjct: 179 NIPQI 183
>gnl|CDD|223114 COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate
transport and metabolism].
Length = 220
Score = 289 bits (743), Expect = e-100
Identities = 110/183 (60%), Positives = 140/183 (76%), Gaps = 3/183 (1%)
Query: 58 IIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLP 117
+ ++PSILSA+FA+LGE++KA+E AG D IH+DVMDG FVPNIT GP VV ALR +TDLP
Sbjct: 4 MKIAPSILSADFARLGEELKALEAAGADLIHIDVMDGHFVPNITFGPPVVKALRKITDLP 63
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
LDVHLM+ P++ + F KAGADI++ H E +T H+HRT+ IK+LG KAG+VLNPAT
Sbjct: 64 LDVHLMVENPDRYIEAFAKAGADIITFHAE--ATEHIHRTIQLIKELGVKAGLVLNPATP 121
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGP 237
L A+E VLD VDLVL+MSVNPGFGGQ FI ++KI +LR M E+ + IEVDGG+
Sbjct: 122 LEALEPVLDDVDLVLLMSVNPGFGGQKFIPEVLEKIRELRAMIDERL-DILIEVDGGINL 180
Query: 238 KNA 240
+
Sbjct: 181 ETI 183
>gnl|CDD|130231 TIGR01163, rpe, ribulose-phosphate 3-epimerase. This family
consists of Ribulose-phosphate 3-epimerase, also known
as pentose-5-phosphate 3-epimerase (PPE). PPE converts
D-ribulose 5-phosphate into D-xylulose 5-phosphate in
Calvin's reductive pentose phosphate cycle. It has been
found in a wide range of bacteria, archebacteria, fungi
and plants [Energy metabolism, Pentose phosphate
pathway].
Length = 210
Score = 286 bits (734), Expect = 8e-99
Identities = 114/184 (61%), Positives = 145/184 (78%), Gaps = 2/184 (1%)
Query: 60 VSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLD 119
++PSILSA+FA+LGE+VKAVE AG DWIHVDVMDG FVPN+T GP V++ALR TDLP+D
Sbjct: 1 IAPSILSADFARLGEEVKAVEEAGADWIHVDVMDGHFVPNLTFGPPVLEALRKYTDLPID 60
Query: 120 VHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATSLS 179
VHLM+ P++ + DF +AGADI++VH E ++ H+HR L IKDLGAKAG+VLNPAT L
Sbjct: 61 VHLMVENPDRYIEDFAEAGADIITVHPE--ASEHIHRLLQLIKDLGAKAGIVLNPATPLE 118
Query: 180 AIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGPKN 239
+E VL VDLVL+MSVNPGFGGQ FI ++KI ++R+M E G++ IEVDGGV N
Sbjct: 119 FLEYVLPDVDLVLLMSVNPGFGGQKFIPDTLEKIREVRKMIDENGLSILIEVDGGVNDDN 178
Query: 240 AYKV 243
A ++
Sbjct: 179 AREL 182
>gnl|CDD|136958 PRK08745, PRK08745, ribulose-phosphate 3-epimerase; Provisional.
Length = 223
Score = 192 bits (488), Expect = 2e-61
Identities = 97/186 (52%), Positives = 124/186 (66%), Gaps = 5/186 (2%)
Query: 56 SDIIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPV-T 114
++PSILSA+FA+LGE+V V AG DW+H DVMD +VPN+TIGP+V ALR
Sbjct: 2 QPTAIAPSILSADFARLGEEVDNVLKAGADWVHFDVMDNHYVPNLTIGPMVCQALRKHGI 61
Query: 115 DLPLDVHLMIVEPEQR-VPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLN 173
P+DVHLM VEP R VPDF AGA +S H E S H+HRT+ IK G +AG+VLN
Sbjct: 62 TAPIDVHLM-VEPVDRIVPDFADAGATTISFHPEASR--HVHRTIQLIKSHGCQAGLVLN 118
Query: 174 PATSLSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDG 233
PAT + ++ VL +DLVL+MSVNPGFGGQ+FI S + K+ +R+ G +E+DG
Sbjct: 119 PATPVDILDWVLPELDLVLVMSVNPGFGGQAFIPSALDKLRAIRKKIDALGKPIRLEIDG 178
Query: 234 GVGPKN 239
GV N
Sbjct: 179 GVKADN 184
>gnl|CDD|240303 PTZ00170, PTZ00170, D-ribulose-5-phosphate 3-epimerase;
Provisional.
Length = 228
Score = 185 bits (473), Expect = 6e-59
Identities = 76/185 (41%), Positives = 114/185 (61%), Gaps = 8/185 (4%)
Query: 59 IVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLP- 117
I++PSIL+A+F+KL ++ + V G DW+HVDVMDG FVPN++ GP VV +LR
Sbjct: 8 IIAPSILAADFSKLADEAQDVLSGGADWLHVDVMDGHFVPNLSFGPPVVKSLRKHLPNTF 67
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
LD HLM+ PE+ V DF KAGA + H E + +I++ G K GV + P T
Sbjct: 68 LDCHLMVSNPEKWVDDFAKAGASQFTFHIEATEDDPK-AVARKIREAGMKVGVAIKPKTP 126
Query: 178 LSAIECVLD--VVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGV 235
+ + ++D +VD+VL+M+V PGFGGQSF+ + K+ +LR+ + + I+VDGG+
Sbjct: 127 VEVLFPLIDTDLVDMVLVMTVEPGFGGQSFMHDMMPKVRELRK----RYPHLNIQVDGGI 182
Query: 236 GPKNA 240
+
Sbjct: 183 NLETI 187
>gnl|CDD|236616 PRK09722, PRK09722, allulose-6-phosphate 3-epimerase; Provisional.
Length = 229
Score = 184 bits (470), Expect = 1e-58
Identities = 63/176 (35%), Positives = 109/176 (61%), Gaps = 2/176 (1%)
Query: 58 IIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLP 117
+ +SPS++ + K EQ++ + + D+ H+D+MDG FVPN+T+ P V ++ + P
Sbjct: 3 MKISPSLMCMDLLKFKEQIEFLN-SKADYFHIDIMDGHFVPNLTLSPFFVSQVKKLASKP 61
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
LDVHLM+ +P+ + AGAD +++H E + R +++I+ G K G+VLNP T
Sbjct: 62 LDVHLMVTDPQDYIDQLADAGADFITLHPETING-QAFRLIDEIRRAGMKVGLVLNPETP 120
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDG 233
+ +I+ + ++D + +M+V+PGF GQ FI + KI++L+ + G+ IEVDG
Sbjct: 121 VESIKYYIHLLDKITVMTVDPGFAGQPFIPEMLDKIAELKALRERNGLEYLIEVDG 176
>gnl|CDD|181575 PRK08883, PRK08883, ribulose-phosphate 3-epimerase; Provisional.
Length = 220
Score = 183 bits (465), Expect = 5e-58
Identities = 92/182 (50%), Positives = 125/182 (68%), Gaps = 3/182 (1%)
Query: 59 IVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPV-TDLP 117
+++PSILSA+FA+LGE V+ V AG D +H DVMD +VPN+T G + ALR P
Sbjct: 1 LIAPSILSADFARLGEDVEKVLAAGADVVHFDVMDNHYVPNLTFGAPICKALRDYGITAP 60
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
+DVHLM+ ++ +PDF KAGA +++ H E S H+ RTL IK+ G +AGVVLNPAT
Sbjct: 61 IDVHLMVKPVDRIIPDFAKAGASMITFHVEASE--HVDRTLQLIKEHGCQAGVVLNPATP 118
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDGGVGP 237
L +E ++D VDL+L+MSVNPGFGGQSFI + K+ +R+M E G + +E+DGGV
Sbjct: 119 LHHLEYIMDKVDLILLMSVNPGFGGQSFIPHTLDKLRAVRKMIDESGRDIRLEIDGGVKV 178
Query: 238 KN 239
N
Sbjct: 179 DN 180
>gnl|CDD|169179 PRK08005, PRK08005, epimerase; Validated.
Length = 210
Score = 94.3 bits (234), Expect = 1e-23
Identities = 52/160 (32%), Positives = 83/160 (51%), Gaps = 2/160 (1%)
Query: 58 IIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLP 117
+I+ PS+ SA+ + E + A+ A +H+D+ D F+ NIT G + A+ T P
Sbjct: 1 MILHPSLASADPLRYAEALTALHDAPLGSLHLDIEDTSFINNITFGMKTIQAVAQQTRHP 60
Query: 118 LDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATS 177
L HLM+ P++ +P + +H E S + L I+ +GAKAG+ LNPAT
Sbjct: 61 LSFHLMVSSPQRWLPWLAAIRPGWIFIHAE--SVQNPSEILADIRAIGAKAGLALNPATP 118
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLR 217
L + +D ++IM+ P GQ FI + +K+S R
Sbjct: 119 LLPYRYLALQLDALMIMTSEPDGRGQQFIAAMCEKVSQSR 158
>gnl|CDD|169215 PRK08091, PRK08091, ribulose-phosphate 3-epimerase; Validated.
Length = 228
Score = 75.7 bits (186), Expect = 1e-16
Identities = 48/176 (27%), Positives = 86/176 (48%), Gaps = 6/176 (3%)
Query: 60 VSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLD 119
+S IL++N+ K E + + +H D+ DG+F P T+G + + P D
Sbjct: 15 ISVGILASNWLKFNETLTTLSENQLRLLHFDIADGQFSPFFTVGAIAIKQF-PTHCFK-D 72
Query: 120 VHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKA--GVVLNPATS 177
VHLM+ + + + AGADIV++ EQ T L T+ + G+ L P T
Sbjct: 73 VHLMVRDQFEVAKACVAAGADIVTLQVEQ--THDLALTIEWLAKQKTTVLIGLCLCPETP 130
Query: 178 LSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEVDG 233
+S +E LD +DL+ I++++P G ++ + + ++ + + V I +DG
Sbjct: 131 ISLLEPYLDQIDLIQILTLDPRTGTKAPSDLILDRVIQVENRLGNRRVEKLISIDG 186
>gnl|CDD|172549 PRK14057, PRK14057, epimerase; Provisional.
Length = 254
Score = 75.9 bits (186), Expect = 2e-16
Identities = 54/185 (29%), Positives = 94/185 (50%), Gaps = 13/185 (7%)
Query: 60 VSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLD 119
+S IL+ + L ++ +E +H+D+MDG+F P T+GP V L P T + D
Sbjct: 22 LSVGILAGQWIALHRYLQQLEALNQPLLHLDLMDGQFCPQFTVGPWAVGQL-PQTFIK-D 79
Query: 120 VHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQI---------KDLGAKAGV 170
VHLM+ + +KAGA +++ E IHLH TL+ + ++ G+
Sbjct: 80 VHLMVADQWTAAQACVKAGAHCITLQAE--GDIHLHHTLSWLGQQTVPVIGGEMPVIRGI 137
Query: 171 VLNPATSLSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIE 230
L PAT L I +L V+++ +++VNPG+G + ++++ L + +K I
Sbjct: 138 SLCPATPLDVIIPILSDVEVIQLLAVNPGYGSKMRSSDLHERVAQLLCLLGDKREGKIIV 197
Query: 231 VDGGV 235
+DG +
Sbjct: 198 IDGSL 202
>gnl|CDD|240073 cd04722, TIM_phosphate_binding, TIM barrel proteins share a
structurally conserved phosphate binding motif and in
general share an eight beta/alpha closed barrel
structure. Specific for this family is the conserved
phosphate binding site at the edges of strands 7 and 8.
The phosphate comes either from the substrate, as in the
case of inosine monophosphate dehydrogenase (IMPDH), or
from ribulose-5-phosphate 3-epimerase (RPE) or from
cofactors, like FMN.
Length = 200
Score = 71.8 bits (176), Expect = 2e-15
Identities = 45/188 (23%), Positives = 70/188 (37%), Gaps = 13/188 (6%)
Query: 60 VSPSILSANFAK-LGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPL 118
V ++L+ + E KA AG D I V T V+ + TDLPL
Sbjct: 1 VILALLAGGPSGDPVELAKAAAEAGADAIIVGTRSSDPEEAETDDKEVLKEVAAETDLPL 60
Query: 119 DVHLMIVEPEQRVPD----FIKAGADIVSVHCEQSSTI-HLHRTLNQIKD--LGAKAGVV 171
V L I + V AGAD V +H + ++++ K V
Sbjct: 61 GVQLAINDAAAAVDIAAAAARAAGADGVEIHGAVGYLAREDLELIRELREAVPDVKVVVK 120
Query: 172 LNPATSLSAIECVLDVVDLVLIMSVNPGFGGQSFIESQVKKISDLRRMCLEKGVNPWIEV 231
L+P L+A VD V + + G GG+ + I+DL + ++G +
Sbjct: 121 LSPTGELAAAAAEEAGVDEVGLGNGGGGGGGRDAVP-----IADLLLILAKRGSKVPVIA 175
Query: 232 DGGVGPKN 239
GG+
Sbjct: 176 GGGINDPE 183
>gnl|CDD|239237 cd02911, arch_FMN, Archeal FMN-binding domain. This family of
archaeal proteins are part of the NAD(P)H-dependent
flavin oxidoreductase (oxidored) FMN-binding family that
reduce a range of alternative electron acceptors. Most
use FAD/FMN as a cofactor and NAD(P)H as electron donor.
Some contain 4Fe-4S cluster to transfer electron from
FAD to FMN. The specific function of this group is
unknown.
Length = 233
Score = 33.5 bits (77), Expect = 0.058
Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 15/102 (14%)
Query: 47 SARVDKFSKSDIIVSPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLV 106
S + ++ + VS I + E + +E AG D IHVD MD P
Sbjct: 129 SEFIKALKETGVPVSVKIRAGVDVDDEELARLIEKAGADIIHVDAMD----------PGN 178
Query: 107 VDALRPVTDLPLDVHLM----IVEPEQRVPDFIKAGADIVSV 144
L+ + D+ ++ ++ + E + GAD+VSV
Sbjct: 179 HADLKKIRDISTELFIIGNNSVTTIES-AKEMFSYGADMVSV 219
>gnl|CDD|182008 PRK09635, sigI, RNA polymerase sigma factor SigI; Provisional.
Length = 290
Score = 32.2 bits (73), Expect = 0.19
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 29 QPSSLSFTRRRIQTIVKASARVDKFSKSDIIVSPSILSANFAKLG 73
QP+ L+F R + ++ S K +K ++V PS L A+LG
Sbjct: 244 QPAVLAFVNRALAGVLALSIEAGKITKIHVLVQPSTLDPLRAELG 288
>gnl|CDD|237513 PRK13803, PRK13803, bifunctional phosphoribosylanthranilate
isomerase/tryptophan synthase subunit beta; Provisional.
Length = 610
Score = 32.1 bits (73), Expect = 0.25
Identities = 28/137 (20%), Positives = 49/137 (35%), Gaps = 7/137 (5%)
Query: 95 RFVPNITIGPLVVDALRPVTDLPLDVHLMIVEPEQRVP--DFIKAGADIVSVHCEQSSTI 152
RFV N + P + A+R P+ V V + K G D V +H +S
Sbjct: 37 RFVGNKFLAPNLEKAIRKAGGRPVGV---FVNESAKAMLKFSKKNGIDFVQLHGAESKAE 93
Query: 153 HLHRTLNQIKDLGAKAGVVLNPATSLSAIECVLDVVDLVLIMSVNPGFGG--QSFIESQV 210
+ K + +++ A ++ D V L + +GG +SF +
Sbjct: 94 PAYCQRIYKKSIKKIGSFLIDDAFGFEVLDEYRDHVKYFLFDNKTKIYGGSGKSFDWEKF 153
Query: 211 KKISDLRRMCLEKGVNP 227
+ L G++P
Sbjct: 154 YNYNFKFPFFLSGGLSP 170
>gnl|CDD|237293 PRK13185, chlL, protochlorophyllide reductase iron-sulfur
ATP-binding protein; Provisional.
Length = 270
Score = 31.1 bits (71), Expect = 0.45
Identities = 27/74 (36%), Positives = 34/74 (45%), Gaps = 16/74 (21%)
Query: 65 LSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDVHLMI 124
LSA FAKLG++V + GCD H D F + P V+D L V D H
Sbjct: 22 LSAAFAKLGKKVLQI---GCDPKH----DSTFTLTGKLVPTVIDILEEV-----DFHSEE 69
Query: 125 VEPEQRVPDFIKAG 138
+ PE DF+ G
Sbjct: 70 LRPE----DFVYEG 79
>gnl|CDD|236449 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 31.4 bits (72), Expect = 0.46
Identities = 25/80 (31%), Positives = 30/80 (37%), Gaps = 26/80 (32%)
Query: 77 KAVELA--GCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDVH------------L 122
A EL GCD I + M G P LV AL+ DLP+ +H L
Sbjct: 159 LAKELEEMGCDSICIKDMAGLLTPYAA-YELV-KALKEEVDLPVQLHSHCTSGLAPMTYL 216
Query: 123 MIVEPEQRVPDFIKAGADIV 142
VE AG DI+
Sbjct: 217 KAVE----------AGVDII 226
>gnl|CDD|227349 COG5016, COG5016, Pyruvate/oxaloacetate carboxyltransferase [Energy
production and conversion].
Length = 472
Score = 30.4 bits (69), Expect = 0.87
Identities = 18/81 (22%), Positives = 28/81 (34%), Gaps = 24/81 (29%)
Query: 74 EQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDVH------------ 121
E K + G D I + M G P +V A++ +P+++H
Sbjct: 160 ELAKELLEMGVDSICIKDMAGLLTPYEAYE--LVKAIKKELPVPVELHTHATSGMAEMTY 217
Query: 122 LMIVEPEQRVPDFIKAGADIV 142
L VE AG D +
Sbjct: 218 LKAVE----------AGVDGI 228
>gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional.
Length = 596
Score = 30.5 bits (68), Expect = 1.00
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 61 SPSILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDV 120
SP NF +LG+++ + GCD I + M G P +T+ + L+ T LP+ +
Sbjct: 148 SPVHTLDNFLELGKKLAEM---GCDSIAIKDMAGLLTPTVTVE--LYAGLKQATGLPVHL 202
Query: 121 H 121
H
Sbjct: 203 H 203
>gnl|CDD|234679 PRK00179, pgi, glucose-6-phosphate isomerase; Reviewed.
Length = 548
Score = 30.1 bits (69), Expect = 1.0
Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 6/31 (19%)
Query: 97 VPNITIG-----P-LVVDALRPVTDLPLDVH 121
V NI IG P +V +ALRP D L VH
Sbjct: 148 VVNIGIGGSDLGPVMVTEALRPYADPGLRVH 178
>gnl|CDD|130370 TIGR01303, IMP_DH_rel_1, IMP dehydrogenase family protein. This
model represents a family of proteins, often annotated
as a putative IMP dehydrogenase, related to IMP
dehydrogenase and GMP reductase and restricted to the
high GC Gram-positive bacteria. All species in which a
member is found so far (Corynebacterium glutamicum,
Mycobacterium tuberculosis, Streptomyces coelicolor,
etc.) also have IMP dehydrogenase as described by
TIGRFAMs entry TIGR01302 [Unknown function, General].
Length = 475
Score = 30.3 bits (68), Expect = 1.1
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 9/75 (12%)
Query: 72 LGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDVHLMI--VEPEQ 129
+G + KA+ AG D + +D G V I A++ V L L V ++ V +
Sbjct: 226 VGGKAKALLDAGVDVLVIDTAHGHQVKMI-------SAIKAVRALDLGVPIVAGNVVSAE 278
Query: 130 RVPDFIKAGADIVSV 144
V D ++AGA+I+ V
Sbjct: 279 GVRDLLEAGANIIKV 293
>gnl|CDD|181127 PRK07807, PRK07807, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 479
Score = 29.5 bits (67), Expect = 1.5
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 107 VDALRPVTDLPLDVHLM---IVEPEQRVPDFIKAGADIVSV 144
++ALR V L V ++ +V E D ++AGADIV V
Sbjct: 256 LEALRAVRALDPGVPIVAGNVVTAEG-TRDLVEAGADIVKV 295
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 28.9 bits (65), Expect = 2.2
Identities = 24/93 (25%), Positives = 42/93 (45%), Gaps = 26/93 (27%)
Query: 64 ILSANFAKLGEQVKAVELAGCDWIHVDVMDGRFVPNITIGPLVVDALRPVTDLPLDVHLM 123
++ A+F +GE +ELAGCD +TI P +++ LR T+ L L
Sbjct: 226 VMGASFRNIGE---IIELAGCDL-------------LTISPKLLEQLRS-TEAELPRKL- 267
Query: 124 IVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHR 156
+P AG +I +H ++++ +H
Sbjct: 268 --DPAN------AAGMEIEKIHMDRATFDKMHA 292
>gnl|CDD|143603 cd07579, nitrilase_1_R2, Second nitrilase domain of an
uncharacterized subgroup of the nitrilase superfamily
(putative class 13 nitrilases). Members of this
subgroup have two nitrilase domains. This is the second
of those two domains. The nitrilase superfamily is
comprised of nitrile- or amide-hydrolyzing enzymes and
amide-condensing enzymes, which depend on a Glu-Lys-Cys
catalytic triad. This superfamily has been classified in
the literature based on global and structure based
sequence analysis into thirteen different enzyme classes
(referred to as 1-13). Class 13 represents proteins that
at the time were difficult to place in a distinct
similarity group; this subgroup represents either a new
class or one that was included previously in class 13.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer.
Length = 279
Score = 28.7 bits (64), Expect = 2.4
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 51 DKFSKSDIIVSPSILSANFAK--LGEQVKAVELAGCDWIHVDVMDGR 95
D S ++V P L + K L E ++ G W D+ GR
Sbjct: 84 DGLYNSAVLVGPEGLVGTYRKTHLIEPERSWATPGDTWPVYDLPLGR 130
>gnl|CDD|237103 PRK12447, PRK12447, histidinol dehydrogenase; Reviewed.
Length = 426
Score = 28.7 bits (65), Expect = 3.2
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 47 SARVDKFSKSDIIVSPSILSANFAKLGEQVKA 78
S + DK+S +S + + A AK+ EQVK
Sbjct: 45 SRKFDKWSPGSFRLSAAEIDAAVAKVPEQVKE 76
>gnl|CDD|112483 pfam03668, ATP_bind_2, P-loop ATPase protein family. This family
contains an ATP-binding site and could be an ATPase
(personal obs:C Yeats).
Length = 284
Score = 28.2 bits (63), Expect = 3.5
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 91 VMDGRFVPNITIGPLVVDALRPVTDL 116
V D RF+PN P LRP+T L
Sbjct: 182 VFDVRFLPN----PHWDPELRPLTGL 203
>gnl|CDD|163675 cd07937, DRE_TIM_PC_TC_5S, Pyruvate carboxylase and
Transcarboxylase 5S, carboxyltransferase domain. This
family includes the carboxyltransferase domains of
pyruvate carboxylase (PC) and the transcarboxylase (TC)
5S subunit. Transcarboxylase 5S is a cobalt-dependent
metalloenzyme subunit of the biotin-dependent
transcarboxylase multienzyme complex. Transcarboxylase
5S transfers carbon dioxide from the 1.3S biotin to
pyruvate in the second of two carboxylation reactions
catalyzed by TC. The first reaction involves the
transfer of carbon dioxide from methylmalonyl-CoA to the
1.3S biotin, and is catalyzed by the 12S subunit. These
two steps allow a carboxylate group to be transferred
from oxaloacetate to propionyl-CoA to yield pyruvate and
methylmalonyl-CoA. The catalytic domain of
transcarboxylase 5S has a canonical TIM-barrel fold with
a large C-terminal extension that forms a funnel leading
to the active site. Transcarboxylase 5S forms a
homodimer and there are six dimers per complex. In
addition to the catalytic domain, transcarboxylase 5S
has several other domains including a
carbamoyl-phosphate synthase domain, a biotin
carboxylase domain, a carboxyltransferase domain, and an
ATP-grasp domain. Pyruvate carboxylase, like TC, is a
biotin-dependent enzyme that catalyzes the carboxylation
of pyruvate to produce oxaloacetate. In mammals, PC has
critical roles in gluconeogenesis, lipogenesis,
glyceroneogenesis, and insulin secretion. Inherited PC
deficiencies are linked to serious diseases in humans
such as lactic acidemia, hypoglycemia, psychomotor
retardation, and death. PC is a single-chain enzyme and
is active only in its homotetrameric form. PC has three
domains, an N-terminal biotin carboxylase domain, a
carboxyltransferase domain (this alignment model), and a
C-terminal biotin-carboxyl carrier protein domain. This
family belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 275
Score = 28.2 bits (64), Expect = 3.7
Identities = 21/85 (24%), Positives = 28/85 (32%), Gaps = 32/85 (37%)
Query: 74 EQVKAVELAGCDWIHVDVMDGRFVPNITIGPLV----VDALRPVTDLPLDVH-------- 121
+ K +E G D I + M G + P V AL+ LP+ +H
Sbjct: 153 KLAKELEDMGADSICIKDMAG------LLTPYAAYELVKALKKEVGLPIHLHTHDTSGLA 206
Query: 122 ----LMIVEPEQRVPDFIKAGADIV 142
L E AG DIV
Sbjct: 207 VATYLAAAE----------AGVDIV 221
>gnl|CDD|162163 TIGR01027, proB, glutamate 5-kinase. Bacterial ProB proteins hit
the full length of this model, but the ProB-like domain
of delta 1-pyrroline-5-carboxylate synthetase does not
hit the C-terminal 100 residues of this model. The
noise cutoff is set low enough to hit delta
1-pyrroline-5-carboxylate synthetase and other partial
matches to this family [Amino acid biosynthesis,
Glutamate family].
Length = 363
Score = 28.4 bits (64), Expect = 3.8
Identities = 16/53 (30%), Positives = 23/53 (43%)
Query: 31 SSLSFTRRRIQTIVKASARVDKFSKSDIIVSPSILSANFAKLGEQVKAVELAG 83
SS S R I +V+ A + +IVS ++A F LG + LA
Sbjct: 15 SSGSLDRSHIAELVEQVAALHAAGHEVVIVSSGAIAAGFEALGLPERPKTLAE 67
>gnl|CDD|165164 PHA02813, PHA02813, hypothetical protein; Provisional.
Length = 354
Score = 27.9 bits (62), Expect = 4.7
Identities = 19/86 (22%), Positives = 32/86 (37%), Gaps = 5/86 (5%)
Query: 113 VTDLPLDVHLMIVEPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVL 172
++D+ LD + +++ E+ DF D + + HL LN G + +
Sbjct: 87 ISDIILDNTITLIKYEK--GDFFNNHRDFIHFKSKNCYCYHLVLYLNNTSK-GGNTNIHI 143
Query: 173 NPATSLSAIECVLDVVDLVLIMSVNP 198
T S VL D L S +
Sbjct: 144 KDNTIFSTKNDVL--FDKTLNHSSDI 167
>gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase;
Provisional.
Length = 368
Score = 28.0 bits (63), Expect = 5.4
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 21/75 (28%)
Query: 141 IVSVHCEQSSTIHLHRTLNQIKDLGAKA-----GVVLNPATSLSAIECVLDVVDL---VL 192
+ VHCE ++ I LN + ++ A A ++++ +S AI +D+ +L L
Sbjct: 135 VALVHCETTTGI-----LNPLDEIAAVAKRHGKRLIVDAMSSFGAIP--IDIAELGIDAL 187
Query: 193 IMSVN------PGFG 201
I S N PGFG
Sbjct: 188 ISSANKCIEGVPGFG 202
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 27.5 bits (62), Expect = 5.9
Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 22/83 (26%)
Query: 74 EQVKAVELAGCDWIHVDVMDGRFVPNIT----IGPLVVDALRPVTDLPLDVHLMIVEP-- 127
E+ A AG D++ V G P T P ++ LR + + P
Sbjct: 115 EEAAAALAAGADYVGV----GPIFPTPTKKDAKAPQGLEGLREI------RAAVGDIPIV 164
Query: 128 ------EQRVPDFIKAGADIVSV 144
+ P+ ++AGAD V+V
Sbjct: 165 AIGGITPENAPEVLEAGADGVAV 187
>gnl|CDD|233002 TIGR00510, lipA, lipoate synthase. This enzyme is an iron-sulfur
protein. It is localized to mitochondria in yeast and
Arabidopsis. It generates lipoic acid, a thiol
antioxidant that is linked to a specific Lys as
prosthetic group for the pyruvate and
alpha-ketoglutarate dehydrogenase complexes and the
glycine-cleavage system. The family shows strong
sequence conservation [Biosynthesis of cofactors,
prosthetic groups, and carriers, Lipoate].
Length = 302
Score = 27.5 bits (61), Expect = 6.4
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 98 PNITIGPLVVD------ALRPVTDLPLDVHLMIVEPEQRVPDFIKAGAD 140
PNI I LV D AL + D P DV+ +E +R+ F++ GA
Sbjct: 141 PNIKIETLVPDFRGNIAALDILLDAPPDVYNHNLETVERLTPFVRPGAT 189
>gnl|CDD|238931 cd01971, Nitrogenase_VnfN_like, Nitrogenase_vnfN_like: VnfN subunit
of the VnfEN complex-like. This group in addition to
VnfN contains a subset of the beta subunit of the
nitrogenase MoFe protein and NifN-like proteins. The
nitrogenase enzyme system catalyzes the ATP-dependent
reduction of dinitrogen to ammonia. NifEN participates
in the synthesis of the iron-molybdenum cofactor
(FeMoco) of MoFe protein of the
molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur
containing precursor of the FeMoco) from NifB is
transferred to NifEN where it is further processed to
FeMoco. VnfEN may similarly be a scaffolding protien
for the iron-vanadium cofactor (FeVco) of the
vanadium-dependent (V)-nitrogenase. NifE and NifN are
essential for the Mo-nitrogenase, VnfE and VnfN are not
essential for the V-nitrogenase. NifE and NifN can
substitute when the vnfEN genes are inactivated.
Length = 427
Score = 27.4 bits (61), Expect = 7.8
Identities = 16/89 (17%), Positives = 35/89 (39%), Gaps = 9/89 (10%)
Query: 126 EPEQRVPDFIKAGADIVSVHCEQSSTIHLHRTLNQIKDLGAKAGVVLNPATSLSAIECVL 185
+ +V FIKA + E+ S L + V+ + +L ++
Sbjct: 260 IEKAKVEAFIKAEEKRYYHYLERFSDFMARWGLP------RRFAVIADSTYALGLARFLV 313
Query: 186 DVVDLV---LIMSVNPGFGGQSFIESQVK 211
+ + V +++ NP +S IE++ +
Sbjct: 314 NELGWVPAKQVITDNPPEKYRSAIENEFE 342
>gnl|CDD|176987 CHL00046, atpI, ATP synthase CF0 A subunit.
Length = 228
Score = 27.2 bits (61), Expect = 7.8
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 201 GGQSFIESQVKKISDLRRMCL-EKGVNPWI 229
GGQ+F E ++ I DL + + E+ PW+
Sbjct: 53 GGQNFFEYVLEFIRDLAKTQIGEEEYRPWV 82
>gnl|CDD|239200 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present.
Length = 231
Score = 27.1 bits (61), Expect = 8.2
Identities = 16/67 (23%), Positives = 31/67 (46%), Gaps = 9/67 (13%)
Query: 106 VVDALRPVTDLPLDVHLMI-VEPEQRVPDFIK----AGADIVSVHC---EQSSTIHLHR- 156
+V A+R +P+ V + + + E+ + K AGA ++VH EQ +
Sbjct: 114 IVRAVREAVPIPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADWD 173
Query: 157 TLNQIKD 163
+ +IK+
Sbjct: 174 YIAEIKE 180
>gnl|CDD|235973 PRK07226, PRK07226, fructose-bisphosphate aldolase; Provisional.
Length = 267
Score = 27.1 bits (61), Expect = 8.4
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 10/41 (24%)
Query: 115 DLPLDVHL-----MIVEPEQRVP-----DFIKAGADIVSVH 145
D+ L VHL + +P +V + IK GAD VSVH
Sbjct: 73 DVGLIVHLSASTSLSPDPNDKVLVGTVEEAIKLGADAVSVH 113
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 0.136 0.396
Gapped
Lambda K H
0.267 0.0663 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,361,868
Number of extensions: 1172925
Number of successful extensions: 1223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1194
Number of HSP's successfully gapped: 56
Length of query: 246
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 152
Effective length of database: 6,768,326
Effective search space: 1028785552
Effective search space used: 1028785552
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: 58 (26.3 bits)