RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy786
(176 letters)
>gnl|CDD|238970 cd02012, TPP_TK, Thiamine pyrophosphate (TPP) family, Transketolase
(TK) subfamily, TPP-binding module; TK catalyzes the
transfer of a two-carbon unit from ketose phosphates to
aldose phosphates. In heterotrophic organisms, TK
provides a link between glycolysis and the pentose
phosphate pathway and provides precursors for
nucleotide, aromatic amino acid and vitamin
biosynthesis. In addition, the enzyme plays a central
role in the Calvin cycle in plants. Typically, TKs are
homodimers. They require TPP and divalent cations, such
as magnesium ions, for activity.
Length = 255
Score = 216 bits (554), Expect = 6e-72
Identities = 71/143 (49%), Positives = 86/143 (60%), Gaps = 2/143 (1%)
Query: 15 AWAEAGLFPVSELKNLRKIDSDLEGHPTPRLN-FIDVGTGSLGQGLSVAAGMAYVGKYFD 73
A AG P +LK R++ S L GHP L ++V TGSLGQGLSVA GMA K
Sbjct: 66 VLALAGYLPEEDLKTFRQLGSRLPGHPEYGLTPGVEVTTGSLGQGLSVAVGMALAEKLL- 124
Query: 74 KASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVYR 133
YR Y L+GDGE EGS+WEA FA +YKLDNL I D NR+ PT TE
Sbjct: 125 GFDYRVYVLLGDGELQEGSVWEAASFAGHYKLDNLIAIVDSNRIQIDGPTDDILFTEDLA 184
Query: 134 KRLDAFGFNAVVVDGHDVEHLVK 156
K+ +AFG+N + VDGHDVE ++
Sbjct: 185 KKFEAFGWNVIEVDGHDVEEILA 207
>gnl|CDD|235639 PRK05899, PRK05899, transketolase; Reviewed.
Length = 586
Score = 172 bits (438), Expect = 3e-51
Identities = 59/149 (39%), Positives = 79/149 (53%), Gaps = 12/149 (8%)
Query: 15 AWAEAGL-FPVSELKNLRKIDSDLEGHPTPR-LNFIDVGTGSLGQGLSVAAGMAYVGKY- 71
AG + +LKN R++ S GHP ++ TG LGQGL+ A GMA KY
Sbjct: 78 LLHLAGYDLSIDDLKNFRQLGSKTPGHPEYGHTPGVETTTGPLGQGLANAVGMALAEKYL 137
Query: 72 ---FDKAS-----YRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPT 123
F++ + TY L GDG+ EG EA A + KL NL VI+D NR+ PT
Sbjct: 138 AALFNRPGLDIVDHYTYVLCGDGDLMEGISHEACSLAGHLKLGNLIVIYDDNRISIDGPT 197
Query: 124 SLQHQTEVYRKRLDAFGFNAVVVDGHDVE 152
TE +KR +A+G++ + VDGHDVE
Sbjct: 198 EG-WFTEDVKKRFEAYGWHVIEVDGHDVE 225
>gnl|CDD|226468 COG3959, COG3959, Transketolase, N-terminal subunit [Carbohydrate
transport and metabolism].
Length = 243
Score = 159 bits (403), Expect = 3e-49
Identities = 65/142 (45%), Positives = 84/142 (59%), Gaps = 2/142 (1%)
Query: 17 AEAGLFPVSELKNLRKIDSDLEGHPT-PRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKA 75
AE G FP EL+ R+I S L GHP + ++V TGSLGQGLSVA GMA K +
Sbjct: 82 AEKGYFPEEELETFRRIGSRLPGHPERNKTPGVEVSTGSLGQGLSVAVGMALGAK-LKGS 140
Query: 76 SYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVYRKR 135
YR Y ++GDGE EG +WEA A++YKLDNL I D N+L T E +
Sbjct: 141 PYRVYVILGDGELDEGQVWEAAMTAAHYKLDNLIAIVDRNKLQLDGETEEIMPKEPLADK 200
Query: 136 LDAFGFNAVVVDGHDVEHLVKV 157
+AFG+ + VDGHD+E +V+
Sbjct: 201 WEAFGWEVIEVDGHDIEEIVEA 222
>gnl|CDD|144157 pfam00456, Transketolase_N, Transketolase, thiamine diphosphate
binding domain. This family includes transketolase
enzymes EC:2.2.1.1. and also partially matches to
2-oxoisovalerate dehydrogenase beta subunit EC:1.2.4.4.
Both these enzymes utilise thiamine pyrophosphate as a
cofactor, suggesting there may be common aspects in
their mechanism of catalysis.
Length = 333
Score = 149 bits (378), Expect = 1e-44
Identities = 51/153 (33%), Positives = 73/153 (47%), Gaps = 13/153 (8%)
Query: 16 WAEAGL-FPVSELKNLRKIDSDLEGHPTPRLNF-IDVGTGSLGQGLSVAAGMA------- 66
G + +LK+ R++ S GHP ++V TG LGQG++ A GMA
Sbjct: 73 LHLTGYDLSMEDLKSFRQLGSKTPGHPEFGHTAGVEVTTGPLGQGIANAVGMAIAEANLA 132
Query: 67 --YVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTS 124
Y FD + TY +GDG EG EA A + KL NL +D NR+ T
Sbjct: 133 ATYNRPGFDIVDHYTYVFLGDGCLMEGVSSEASSLAGHLKLGNLIAFYDDNRISIDGETE 192
Query: 125 LQHQTEVYRKRLDAFGFNAV-VVDGHDVEHLVK 156
+ + KR +A+G++ + V DGHDVE +
Sbjct: 193 ISFTEDT-AKRFEAYGWHVIEVEDGHDVEAIAA 224
>gnl|CDD|223100 COG0021, TktA, Transketolase [Carbohydrate transport and
metabolism].
Length = 663
Score = 127 bits (322), Expect = 1e-34
Identities = 54/143 (37%), Positives = 77/143 (53%), Gaps = 12/143 (8%)
Query: 23 PVSELKNLRKIDSDLEGHPTPR-LNFIDVGTGSLGQGLSVAAGMA----YVGKYFDKASY 77
+ +LKN R++ S GHP ++ TG LGQGL+ A GMA ++ F++ +
Sbjct: 85 SLEDLKNFRQLGSKTPGHPEYGHTPGVEATTGPLGQGLANAVGMALAEKHLAALFNRPGF 144
Query: 78 -----RTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVY 132
TY LVGDG EG EA A + KL L V++D N + TSL TE
Sbjct: 145 DIVDHYTYVLVGDGCLMEGVSHEAASLAGHLKLGKLIVLYDSNDISIDGDTSLSF-TEDV 203
Query: 133 RKRLDAFGFNAV-VVDGHDVEHL 154
KR +A+G+N + V+DGHD+E +
Sbjct: 204 AKRFEAYGWNVIRVIDGHDLEAI 226
>gnl|CDD|232887 TIGR00232, tktlase_bact, transketolase, bacterial and yeast. This
model is designed to capture orthologs of bacterial
transketolases. The group includes two from the yeast
Saccharomyces cerevisiae but excludes dihydroxyactetone
synthases (formaldehyde transketolases) from various
yeasts and the even more distant mammalian
transketolases. Among the family of thiamine
diphosphate-dependent enzymes that includes
transketolases, dihydroxyacetone synthases, pyruvate
dehydrogenase E1-beta subunits, and
deoxyxylulose-5-phosphate synthases, mammalian and
bacterial transketolases seem not to be orthologous
[Energy metabolism, Pentose phosphate pathway].
Length = 653
Score = 89.4 bits (222), Expect = 3e-21
Identities = 48/141 (34%), Positives = 68/141 (48%), Gaps = 12/141 (8%)
Query: 23 PVSELKNLRKIDSDLEGHPT-PRLNFIDVGTGSLGQGLSVAAGMAYVGKY----FDKASY 77
+ +LK R++ S GHP ++ TG LGQG++ A GMA K F+K +
Sbjct: 79 SIEDLKQFRQLHSKTPGHPEFGHTAGVEATTGPLGQGIANAVGMAIAQKTLAATFNKPGF 138
Query: 78 R-----TYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVY 132
TY VGDG EG +E A + KL L V++D NR+ TE
Sbjct: 139 EIVDHYTYVFVGDGCLQEGISYEVASLAGHLKLGKLIVLYDSNRISIDGAVDGSF-TEDV 197
Query: 133 RKRLDAFGFNAV-VVDGHDVE 152
KR +A+G+ + V DGHD+
Sbjct: 198 AKRFEAYGWEVLEVEDGHDLA 218
>gnl|CDD|215424 PLN02790, PLN02790, transketolase.
Length = 654
Score = 86.2 bits (214), Expect = 3e-20
Identities = 48/149 (32%), Positives = 72/149 (48%), Gaps = 19/149 (12%)
Query: 23 PVSELKNLRKIDSDLEGHPTPRLNF----IDVGTGSLGQGLSVAAGMAYVGKY----FDK 74
+ +LK R+ S GHP NF I+V TG LGQG++ A G+A K+ F+K
Sbjct: 74 QMEDLKQFRQWGSRTPGHPE---NFETPGIEVTTGPLGQGIANAVGLALAEKHLAARFNK 130
Query: 75 A-----SYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQT 129
+ TYC++GDG EG EA A ++ L L V++D N + T + T
Sbjct: 131 PDHKIVDHYTYCILGDGCQMEGISNEAASLAGHWGLGKLIVLYDDNHISIDGDTEIA-FT 189
Query: 130 EVYRKRLDAFGFNAVVVDG--HDVEHLVK 156
E KR +A G++ + V D + +
Sbjct: 190 EDVDKRYEALGWHTIWVKNGNTDYDEIRA 218
>gnl|CDD|223997 COG1071, AcoA, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, alpha
subunit [Energy production and conversion].
Length = 358
Score = 84.2 bits (209), Expect = 9e-20
Identities = 38/115 (33%), Positives = 59/115 (51%), Gaps = 1/115 (0%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCV 110
G+G +G + +AAG A KY GDG + +G EAL+FA+ +KL + V
Sbjct: 134 GSGIVGTQIPLAAGAALALKYRGTKDGVAVAFFGDGATNQGDFHEALNFAAVWKLPVVFV 193
Query: 111 IFDINRLGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQKA 165
I + N+ S P S Q E+ R A+G V VDG+DV + + + +++A
Sbjct: 194 IEN-NQYAISVPRSRQTAAEIIAARAAAYGIPGVRVDGNDVLAVYEAAKEAVERA 247
>gnl|CDD|238958 cd02000, TPP_E1_PDC_ADC_BCADC, Thiamine pyrophosphate (TPP) family,
E1 of PDC_ADC_BCADC subfamily, TPP-binding module;
composed of proteins similar to the E1 components of the
human pyruvate dehydrogenase complex (PDC), the acetoin
dehydrogenase complex (ADC) and the branched chain
alpha-keto acid dehydrogenase/2-oxoisovalerate
dehydrogenase complex (BCADC). PDC catalyzes the
irreversible oxidative decarboxylation of pyruvate to
produce acetyl-CoA in the bridging step between
glycolysis and the citric acid cycle. ADC participates
in the breakdown of acetoin while BCADC participates in
the breakdown of branched chain amino acids. BCADC
catalyzes the oxidative decarboxylation of
4-methyl-2-oxopentanoate, 3-methyl-2-oxopentanoate and
3-methyl-2-oxobutanoate (branched chain 2-oxo acids
derived from the transamination of leucine, valine and
isoleucine).
Length = 293
Score = 79.8 bits (198), Expect = 2e-18
Identities = 38/115 (33%), Positives = 57/115 (49%), Gaps = 2/115 (1%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCV 110
G G +G + +AAG A KY + C GDG + EG EAL+FA+ +KL + V
Sbjct: 102 GNGIVGGQVPLAAGAALALKYRGEDRV-AVCFFGDGATNEGDFHEALNFAALWKLPVIFV 160
Query: 111 IFDINRLGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQKA 165
+ N S PTS Q R A+G + VDG+DV + + + +++A
Sbjct: 161 CEN-NGYAISTPTSRQTAGTSIADRAAAYGIPGIRVDGNDVLAVYEAAKEAVERA 214
>gnl|CDD|173383 PTZ00089, PTZ00089, transketolase; Provisional.
Length = 661
Score = 75.5 bits (186), Expect = 2e-16
Identities = 48/147 (32%), Positives = 71/147 (48%), Gaps = 19/147 (12%)
Query: 26 ELKNLRKIDSDLEGHP----TPRLNFIDVGTGSLGQGLSVAAGMAYVGKY---------F 72
+LKN R++ S GHP TP ++V TG LGQG++ A G+A K+
Sbjct: 88 DLKNFRQLGSRTPGHPERHITPG---VEVTTGPLGQGIANAVGLAIAEKHLAAKFNRPGH 144
Query: 73 DKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVY 132
Y + GDG EG EAL A + L+ L V++D N++ T L TE
Sbjct: 145 PIFDNYVYVICGDGCLQEGVSQEALSLAGHLGLEKLIVLYDDNKITIDGNTDLS-FTEDV 203
Query: 133 RKRLDAFGFNAVVVD--GHDVEHLVKV 157
K+ +A+G++ + VD D + L K
Sbjct: 204 EKKYEAYGWHVIEVDNGNTDFDGLRKA 230
>gnl|CDD|183723 PRK12753, PRK12753, transketolase; Reviewed.
Length = 663
Score = 69.0 bits (169), Expect = 3e-14
Identities = 46/145 (31%), Positives = 68/145 (46%), Gaps = 20/145 (13%)
Query: 23 PVSELKNLRKIDSDLEGHP----TPRLNFIDVGTGSLGQGLSVAAGMAYVGK----YFDK 74
P+ ELKN R++ S GHP TP ++ TG LGQGL+ A G+A + F++
Sbjct: 83 PIEELKNFRQLHSKTPGHPEIGYTPG---VETTTGPLGQGLANAVGLAIAERTLAAQFNR 139
Query: 75 ASYR-----TYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQ- 128
+ TY +GDG EG E A L L +D N G S +
Sbjct: 140 PGHEIVDHYTYVFMGDGCLMEGISHEVCSLAGTLGLGKLIGFYDHN--GISIDGETEGWF 197
Query: 129 TEVYRKRLDAFGFNAV-VVDGHDVE 152
T+ KR +A+ ++ + +DGHD +
Sbjct: 198 TDDTAKRFEAYHWHVIHEIDGHDPQ 222
>gnl|CDD|201386 pfam00676, E1_dh, Dehydrogenase E1 component. This family uses
thiamine pyrophosphate as a cofactor. This family
includes pyruvate dehydrogenase, 2-oxoglutarate
dehydrogenase and 2-oxoisovalerate dehydrogenase.
Length = 303
Score = 63.5 bits (155), Expect = 2e-12
Identities = 36/116 (31%), Positives = 52/116 (44%), Gaps = 6/116 (5%)
Query: 39 GHPTPRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALH 98
G+ P+ N G G +G + + AG+A KY L GDG + +G +EAL+
Sbjct: 90 GYYAPKNNRFYGGNGIVGAQVPLGAGIALAAKY-RGKKEVAITLFGDGATNQGQFFEALN 148
Query: 99 FASYYKLDNLCVIFDI--NRLGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDVE 152
FA+ +KL VIF N+ S P + Y R +G + VDG D
Sbjct: 149 FAALWKLP---VIFVCENNQYAISTPAERSSASTTYADRARGYGIPGIRVDGMDPL 201
>gnl|CDD|183724 PRK12754, PRK12754, transketolase; Reviewed.
Length = 663
Score = 62.7 bits (152), Expect = 6e-12
Identities = 47/146 (32%), Positives = 67/146 (45%), Gaps = 20/146 (13%)
Query: 22 FPVSELKNLRKIDSDLEGHP----TPRLNFIDVGTGSLGQGLSVAAGMAYVGKYF----- 72
P+ ELKN R++ S GHP T ++ TG LGQG++ A GMA K
Sbjct: 82 LPMEELKNFRQLHSKTPGHPEVGYTAG---VETTTGPLGQGIANAVGMAIAEKTLAAQFN 138
Query: 73 ----DKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPTSLQHQ 128
D + TY +GDG EG E A KL L +D N G S ++
Sbjct: 139 RPGHDIVDHYTYAFMGDGCMMEGISHEVCSLAGTLKLGKLIAFYDDN--GISIDGHVEGW 196
Query: 129 -TEVYRKRLDAFGFNAVV-VDGHDVE 152
T+ R +A+G++ + +DGHD +
Sbjct: 197 FTDDTAMRFEAYGWHVIRGIDGHDAD 222
>gnl|CDD|238975 cd02017, TPP_E1_EcPDC_like, Thiamine pyrophosphate (TPP) family, E1
of E. coli PDC-like subfamily, TPP-binding module;
composed of proteins similar to the E1 component of the
Escherichia coli pyruvate dehydrogenase multienzyme
complex (PDC). PDC catalyzes the oxidative
decarboxylation of pyruvate and the subsequent
acetylation of coenzyme A to acetyl-CoA. The E1
component of PDC catalyzes the first step of the
multistep process, using TPP and a divalent cation as
cofactors. E. coli PDC is a homodimeric enzyme.
Length = 386
Score = 61.9 bits (151), Expect = 8e-12
Identities = 29/102 (28%), Positives = 44/102 (43%), Gaps = 10/102 (9%)
Query: 25 SELKNLRKIDSD--LEGHPTPRL--NFIDVGTGSLGQGLSVAAGMAYVGKYF------DK 74
+L N R+ L +P P L +F + T S+G G A A +Y D
Sbjct: 86 EQLDNFRQEVGGGGLSSYPHPWLMPDFWEFPTVSMGLGPIQAIYQARFNRYLEDRGLKDT 145
Query: 75 ASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDINR 116
+ + + +GDGE E A+ A+ KLDNL + + N
Sbjct: 146 SDQKVWAFLGDGEMDEPESLGAIGLAAREKLDNLIFVVNCNL 187
>gnl|CDD|225329 COG2609, AceE, Pyruvate dehydrogenase complex, dehydrogenase (E1)
component [Energy production and conversion].
Length = 887
Score = 61.6 bits (150), Expect = 1e-11
Identities = 25/83 (30%), Positives = 35/83 (42%), Gaps = 6/83 (7%)
Query: 40 HPTPRLNFIDVGTGSLGQGLSVAAGMAYVGKYF------DKASYRTYCLVGDGESAEGSI 93
HP +F T S+G G A A KY D + + + +GDGE E
Sbjct: 179 HPKLMPDFWQFPTVSMGLGPIQAIYQARFLKYLEARGLKDTSDQKVWAFLGDGEMDEPES 238
Query: 94 WEALHFASYYKLDNLCVIFDINR 116
A+ A+ KLDNL + + N
Sbjct: 239 RGAITEAAREKLDNLIFVINCNL 261
>gnl|CDD|213783 TIGR03181, PDH_E1_alph_x, pyruvate dehydrogenase E1 component,
alpha subunit. Members of this protein family are the
alpha subunit of the E1 component of pyruvate
dehydrogenase (PDH). This model represents one branch of
a larger family that E1-alpha proteins from
2-oxoisovalerate dehydrogenase, acetoin dehydrogenase,
another PDH clade, etc [Energy metabolism, Pyruvate
dehydrogenase].
Length = 341
Score = 59.1 bits (144), Expect = 7e-11
Identities = 33/93 (35%), Positives = 47/93 (50%), Gaps = 8/93 (8%)
Query: 62 AAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDI--NRLGQ 119
AAG+AY K GDG ++EG +EAL+FA +K V+F + N+
Sbjct: 131 AAGVAYALKL-RGEDNVAVTYFGDGGTSEGDFYEALNFAGVFKAP---VVFFVQNNQWAI 186
Query: 120 SEPTSLQ-HQTEVYRKRLDAFGFNAVVVDGHDV 151
S P S Q + +K + A+G V VDG+DV
Sbjct: 187 SVPRSKQTAAPTLAQKAI-AYGIPGVQVDGNDV 218
>gnl|CDD|234139 TIGR03182, PDH_E1_alph_y, pyruvate dehydrogenase E1 component,
alpha subunit. Members of this protein family are the
alpha subunit of the E1 component of pyruvate
dehydrogenase (PDH). This model represents one branch of
a larger family that E1-alpha proteins from
2-oxoisovalerate dehydrogenase, acetoin dehydrogenase,
another PDH clade, etc [Energy metabolism, Pyruvate
dehydrogenase].
Length = 315
Score = 55.7 bits (135), Expect = 1e-09
Identities = 35/106 (33%), Positives = 55/106 (51%), Gaps = 12/106 (11%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCV 110
G G +G + +A G+A+ KY + T C GDG + +G +E+ + A+ +KL V
Sbjct: 108 GHGIVGAQVPLATGLAFANKYRGNDNV-TACFFGDGAANQGQFYESFNMAALWKLP---V 163
Query: 111 IFDI--NRLGQSEPTSLQH---QTEVYRKRLDAFGFNAVVVDGHDV 151
IF I N T+++ T++Y KR ++FG VDG DV
Sbjct: 164 IFVIENNLYAMG--TAVERSSSVTDLY-KRGESFGIPGERVDGMDV 206
>gnl|CDD|238965 cd02007, TPP_DXS, Thiamine pyrophosphate (TPP) family, DXS
subfamily, TPP-binding module;
1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a
regulatory enzyme of the mevalonate-independent pathway
involved in terpenoid biosynthesis. Terpeniods are plant
natural products with important pharmaceutical activity.
DXS catalyzes a transketolase-type condensation of
pyruvate with D-glyceraldehyde-3-phosphate to form
1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide.
The formation of DXP leads to the formation of the
terpene precursor IPP (isopentyl diphosphate) and to the
formation of thiamine (vitamin B1) and pyridoxal
(vitamin B6).
Length = 195
Score = 52.5 bits (127), Expect = 6e-09
Identities = 34/108 (31%), Positives = 49/108 (45%), Gaps = 9/108 (8%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCV 110
GTG +S A GMA V + + ++GDG G +EAL+ A Y K N+ V
Sbjct: 73 GTGHSSTSISAALGMA-VARDLKGKKRKVIAVIGDGALTGGMAFEALNNAGYLK-SNMIV 130
Query: 111 IFDINRLGQSEPTSLQHQTEVYRKRLDAFGFNAV-VVDGHDVEHLVKV 157
I + N + S + GF + VDGH++E L+KV
Sbjct: 131 ILNDNEMSISPNVGTPGNL------FEELGFRYIGPVDGHNIEALIKV 172
>gnl|CDD|226466 COG3957, COG3957, Phosphoketolase [Carbohydrate transport and
metabolism].
Length = 793
Score = 46.2 bits (110), Expect = 2e-06
Identities = 32/118 (27%), Positives = 50/118 (42%), Gaps = 9/118 (7%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEG---SIWEALHFASYYKLDNLC 109
G LG LS A G A FD C+VGDGE+ G + W + F + + +
Sbjct: 153 GELGYALSHAYGAA-----FDNPDLIVACVVGDGEAETGPLATSWHSNKFLNPARDGAVL 207
Query: 110 VIFDINRLGQSEPTSL-QHQTEVYRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQKAI 166
I +N PT L + E + + +G+ V V+G D + ++ + L A
Sbjct: 208 PILHLNGYKIENPTVLARISDEELKALFEGYGYEPVFVEGADPADMHQLMAAVLDTAF 265
>gnl|CDD|177069 CHL00149, odpA, pyruvate dehydrogenase E1 component alpha subunit;
Reviewed.
Length = 341
Score = 45.2 bits (107), Expect = 5e-06
Identities = 35/131 (26%), Positives = 61/131 (46%), Gaps = 27/131 (20%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYR------------TYCLVGDGESAEGSIWEALH 98
G +G+G+ +A G A+ ++ YR T C GDG + G +E L+
Sbjct: 126 GFAFIGEGIPIALGAAF------QSIYRQQVLKEVQPLRVTACFFGDGTTNNGQFFECLN 179
Query: 99 FASYYKLDNLCVIFDINR----LGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDVEHL 154
A +KL +IF + +G + S E+++K +AFG + VDG DV +
Sbjct: 180 MAVLWKLP---IIFVVENNQWAIGMAHHRS-TSIPEIHKKA-EAFGLPGIEVDGMDVLAV 234
Query: 155 VKVSSFKLQKA 165
+V+ +++A
Sbjct: 235 REVAKEAVERA 245
>gnl|CDD|233117 TIGR00759, aceE, pyruvate dehydrogenase E1 component, homodimeric
type. Most members of this family are pyruvate
dehydrogenase complex, E1 component. Note: this family
was classified as subfamily rather than equivalog
because it includes a counterexample from Pseudomonas
putida, MdeB, that is active as an E1 component of an
alpha-ketoglutarate dehydrogenase complex rather than a
pyruvate dehydrogase complex. The second pyruvate
dehydrogenase complex E1 protein from Alcaligenes
eutrophus, PdhE, complements an aceE mutant of E. coli
but is not part of a pyruvate dehydrogenase complex
operon, is more similar to the Pseudomonas putida MdeB
than to E. coli AceE, and may have also have a different
primary specificity.
Length = 885
Score = 44.8 bits (106), Expect = 8e-06
Identities = 37/113 (32%), Positives = 51/113 (45%), Gaps = 13/113 (11%)
Query: 13 SKAWAEAGLFPVSELKNLRK-IDSD-LEGHPTPRL--NFIDVGTGSLGQGLSVAAGMAYV 68
++A+ E G +L N R+ + D L +P P L +F T S+G G A A
Sbjct: 146 ARAFLE-GRLTEEQLDNFRQEVQGDGLSSYPHPWLMPDFWQFPTVSMGLGPINAIYQARF 204
Query: 69 GKYF------DKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDIN 115
KY D + + +GDGE E A+ FA+ KLDNL F IN
Sbjct: 205 MKYLENRGLKDTGDQKVWAFLGDGEMDEPESKGAITFAAREKLDNL--TFVIN 255
>gnl|CDD|215213 PLN02374, PLN02374, pyruvate dehydrogenase (acetyl-transferring).
Length = 433
Score = 43.4 bits (102), Expect = 2e-05
Identities = 35/122 (28%), Positives = 59/122 (48%), Gaps = 9/122 (7%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYF------DKASYRTYCLVGDGESAEGSIWEALHFASYYK 104
G +G+G+ VA G A+ KY + T GDG G +E L+ A+ +K
Sbjct: 192 GFAFIGEGIPVATGAAFSSKYRREVLKEESCDDVTLAFFGDGTCNNGQFFECLNMAALWK 251
Query: 105 LDNLCVI-FDINRLGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQ 163
L + V+ ++ +G S + E+++K AFG V VDG DV + +V+ ++
Sbjct: 252 LPIVFVVENNLWAIGMSHLRATSD-PEIWKKG-PAFGMPGVHVDGMDVLKVREVAKEAIE 309
Query: 164 KA 165
+A
Sbjct: 310 RA 311
>gnl|CDD|238318 cd00568, TPP_enzymes, Thiamine pyrophosphate (TPP) enzyme family,
TPP-binding module; found in many key metabolic enzymes
which use TPP (also known as thiamine diphosphate) as a
cofactor. These enzymes include, among others, the E1
components of the pyruvate, the acetoin and the branched
chain alpha-keto acid dehydrogenase complexes.
Length = 168
Score = 41.9 bits (99), Expect = 3e-05
Identities = 24/114 (21%), Positives = 37/114 (32%), Gaps = 17/114 (14%)
Query: 47 FIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLD 106
G G++G GL A G A D+ C+ GDG + L A Y L
Sbjct: 40 LTSTGFGAMGYGLPAAIGAALAAP--DR---PVVCIAGDGGFMMT--GQELATAVRYGLP 92
Query: 107 NLCVIFDINRLGQSEPTSLQHQTEV----------YRKRLDAFGFNAVVVDGHD 150
+ V+F+ G + +A+G V V+ +
Sbjct: 93 VIVVVFNNGGYGTIRMHQEAFYGGRVSGTDLSNPDFAALAEAYGAKGVRVEDPE 146
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 42.0 bits (98), Expect = 7e-05
Identities = 46/170 (27%), Positives = 76/170 (44%), Gaps = 25/170 (14%)
Query: 26 ELKNLRKIDSDLEGHPTPRLNFID-VGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVG 84
++K +R+ + L G+ R + D GTG LS GMA VG+ + ++G
Sbjct: 150 KMKTIRQTNG-LSGYTKRRESEHDSFGTGHSSTTLSAGLGMA-VGRDLKGMNNSVVSVIG 207
Query: 85 DGESAEGSIWEALHFASYYKLDNLCVIFD--------INRLGQSEP--------TSLQHQ 128
DG G +EA++ A Y + + ++ D N G ++P + LQ
Sbjct: 208 DGAMTAGQAYEAMNNAGYLHSNMIVILNDNKQVSLPTANLDGPTQPVGALSCALSRLQSN 267
Query: 129 TEVYRKR----LDAFGFNAV-VVDGHDVEHLVKV-SSFKLQKAIGCVWIQ 172
+ R+ + GF+ V VDGH+++ LV + + K K IG V I
Sbjct: 268 CGMIRETSSTLFEELGFHYVGPVDGHNIDDLVSILETLKSTKTIGPVLIH 317
>gnl|CDD|192267 pfam09364, XFP_N, XFP N-terminal domain. Bacterial enzyme splits
fructose-6-P and/or xylulose-5-P with the aid of
inorganic phosphate into either acetyl-P and
erythrose-4-P and/or acetyl-P and glyeraldehyde-3-P
EC:4.1.2.9, EC:4.1.2.22. This family is distantly
related to transketolases e.g. pfam02779.
Length = 379
Score = 41.7 bits (98), Expect = 8e-05
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 9/118 (7%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSI---WEALHFASYYKLDNLC 109
G LG LS A G FD C+VGDGE+ G + W + F + +
Sbjct: 140 GELGYALSHAYGAV-----FDNPDLIVACVVGDGEAETGPLATSWHSNKFLNPATDGAVL 194
Query: 110 VIFDINRLGQSEPTSLQHQTEV-YRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQKAI 166
I +N S PT L ++ RK + +G+ V+G D + + + L A
Sbjct: 195 PILHLNGYKISNPTILARISDEELRKFFEGYGYEPYFVEGEDPMSMHRRMAETLDTAF 252
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 41.4 bits (98), Expect = 1e-04
Identities = 41/181 (22%), Positives = 59/181 (32%), Gaps = 50/181 (27%)
Query: 29 NLRKIDSDLEGHPTPRLNFIDV-GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGE 87
LR+ D L G P + D G G +S A GMA + ++GDG
Sbjct: 91 TLRQKD-GLSGFPKREESEHDWFGVGHSSTSISAALGMA-KARDLKGEDRNVVAVIGDGA 148
Query: 88 SAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEPT------------------------ 123
G +EAL+ A NL VI + N + S
Sbjct: 149 LTGGMAFEALNNAGADLKSNLIVILNDNEMSISPNVGALSKHLARLRSGPFYQSLREGGK 208
Query: 124 -----------SLQHQTEVYRKRL-------DAFGFNAV-VVDGHDVEHLVKVSSFKLQK 164
+ E K L + GFN + +DGH++E L+ L+
Sbjct: 209 KVLSKVGPPLKRFAKRAEESIKGLLVPGTLFEELGFNYIGPIDGHNLEELIPT----LKN 264
Query: 165 A 165
A
Sbjct: 265 A 265
>gnl|CDD|235470 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 580
Score = 38.1 bits (90), Expect = 0.001
Identities = 32/113 (28%), Positives = 48/113 (42%), Gaps = 25/113 (22%)
Query: 59 LSVAAGMAYVGKYFD---KASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIFDIN 115
+S A GMA K D + ++GDG G +EAL+ A K +L VI + N
Sbjct: 123 ISAALGMA---KARDLKGGEDRKVVAVIGDGALTGGMAFEALNNAGDLK-SDLIVILNDN 178
Query: 116 RLGQSEP--------TSLQHQT--EVYRKRLDAFGFNAV-VVDGHDVEHLVKV 157
+ S L+ T E GFN + +DGHD++ L++
Sbjct: 179 EMSISPNVGALSNYLARLRSSTLFE-------ELGFNYIGPIDGHDLDALIET 224
>gnl|CDD|215152 PLN02269, PLN02269, Pyruvate dehydrogenase E1 component subunit
alpha.
Length = 362
Score = 37.4 bits (87), Expect = 0.002
Identities = 33/105 (31%), Positives = 52/105 (49%), Gaps = 12/105 (11%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCV 110
G G +G + + AG+A+ KY +K + L GDG + +G ++EAL+ A+ + L V
Sbjct: 136 GHGIVGAQVPLGAGLAFAQKY-NKEENVAFALYGDGAANQGQLFEALNIAALWDLP---V 191
Query: 111 IFDINR----LGQSEPTSLQHQTEVYRKRLDAFGFNAVVVDGHDV 151
IF +G +E + + Y KR D + VDG DV
Sbjct: 192 IFVCENNHYGMGTAEWRAAKSPA--YYKRGDY--VPGLKVDGMDV 232
>gnl|CDD|223107 COG0028, IlvB, Thiamine pyrophosphate-requiring enzymes
[acetolactate synthase, pyruvate dehydrogenase
(cytochrome), glyoxylate carboligase, phosphonopyruvate
decarboxylase] [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 550
Score = 36.9 bits (86), Expect = 0.003
Identities = 25/122 (20%), Positives = 36/122 (29%), Gaps = 31/122 (25%)
Query: 43 PRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSI---WEALHF 99
PR G G++G GL A G + + GD G + L
Sbjct: 398 PRRFLTSGGLGTMGFGLPAAIGAKLA-----APDRKVVAIAGD-----GGFMMNGQELET 447
Query: 100 ASYYKLDNLCVIFDINRLGQSEPTSLQHQTEVYRKRL--------------DAFGFNAVV 145
A Y L V+ + G Q Q Y R +A+G +
Sbjct: 448 AVRYGLPVKIVVLNNGGYGMVR----QWQELFYGGRYSGTDLGNPDFVKLAEAYGAKGIR 503
Query: 146 VD 147
V+
Sbjct: 504 VE 505
>gnl|CDD|238969 cd02011, TPP_PK, Thiamine pyrophosphate (TPP) family,
Phosphoketolase (PK) subfamily, TPP-binding module; PK
catalyzes the conversion of D-xylulose 5-phosphate and
phosphate to acetyl phosphate,
D-glyceraldehyde-3-phosphate and H2O. This enzyme
requires divalent magnesium ions and TPP for activity.
Length = 227
Score = 36.2 bits (84), Expect = 0.004
Identities = 31/107 (28%), Positives = 44/107 (41%), Gaps = 15/107 (14%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSI---WEALHFASYYKLDNLC 109
G LG LS A G FD C+VGDGE+ G + W + F + +
Sbjct: 62 GELGYSLSHAYGAV-----FDNPDLIVACVVGDGEAETGPLATSWHSNKFLNPATDGAVL 116
Query: 110 VIFDINRLGQSEPTSLQHQTEVYRKRLDA----FGFNAVVVDGHDVE 152
I +N S PT L + + L+A +G+ V+G D E
Sbjct: 117 PILHLNGYKISNPTIL---ARISHEELEALFRGYGYEPYFVEGDDPE 160
>gnl|CDD|236500 PRK09405, aceE, pyruvate dehydrogenase subunit E1; Reviewed.
Length = 891
Score = 36.7 bits (86), Expect = 0.004
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 10/47 (21%)
Query: 73 DKASYRTYCLVGDGESAE----GSIWEALHFASYYKLDNLCVIFDIN 115
D + + + +GDGE E G A+ A+ KLDNL IF IN
Sbjct: 221 DTSDQKVWAFLGDGEMDEPESLG----AISLAAREKLDNL--IFVIN 261
>gnl|CDD|129308 TIGR00204, dxs, 1-deoxy-D-xylulose-5-phosphate synthase. DXP
synthase is a thiamine diphosphate-dependent enzyme
related to transketolase and the pyruvate dehydrogenase
E1-beta subunit. By an acyloin condensation of pyruvate
with glyceraldehyde 3-phosphate, it produces
1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine
diphosphate (TPP), pyridoxal phosphate, and the
isoprenoid building block isopentenyl diphosphate (IPP)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other, Biosynthesis of cofactors, prosthetic
groups, and carriers, Pyridoxine, Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine].
Length = 617
Score = 34.7 bits (80), Expect = 0.020
Identities = 30/98 (30%), Positives = 43/98 (43%), Gaps = 4/98 (4%)
Query: 26 ELKNLRKIDSDLEGHPTPRLNFIDV-GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVG 84
+ LR+ L G P + DV G +S G+A V A +T C++G
Sbjct: 84 KFSTLRQKKG-LHGFPKRSESEYDVFSAGHSSTSISAGLGIA-VAAEKKGADRKTVCVIG 141
Query: 85 DGESAEGSIWEALHFASYYKLDNLCVIFDINRLGQSEP 122
DG G +EAL+ A K D + VI + N + SE
Sbjct: 142 DGAITAGMAFEALNHAGDLKTD-MIVILNDNEMSISEN 178
>gnl|CDD|235931 PRK07092, PRK07092, benzoylformate decarboxylase; Reviewed.
Length = 530
Score = 33.0 bits (76), Expect = 0.057
Identities = 22/53 (41%), Positives = 27/53 (50%), Gaps = 7/53 (13%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKL 105
G LG GL A G+A + R L+GDG SA SI +AL A+ KL
Sbjct: 407 GGLGYGLPAAVGVA-----LAQPGRRVIGLIGDG-SAMYSI-QALWSAAQLKL 452
>gnl|CDD|222031 pfam13292, DXP_synthase_N, 1-deoxy-D-xylulose-5-phosphate synthase.
This family contains 1-deoxyxylulose-5-phosphate
synthase (DXP synthase), an enzyme which catalyzes the
thiamine pyrophosphoate-dependent acyloin condensation
reaction between carbon atoms 2 and 3 of pyruvate and
glyceraldehyde 3-phosphate, to yield 1-deoxy-D-
xylulose-5-phosphate, a precursor in the biosynthetic
pathway to isoprenoids, thiamine (vitamin B1), and
pyridoxol (vitamin B6).
Length = 272
Score = 32.3 bits (75), Expect = 0.087
Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 138 AFGFNAV-VVDGHDVEHLVKVSSFKLQKAIG 167
GF+ + +DGHD+E L++V + K +
Sbjct: 235 ELGFDYIGPIDGHDLEALIEV--LENAKDLD 263
>gnl|CDD|238960 cd02002, TPP_BFDC, Thiamine pyrophosphate (TPP) family, BFDC
subfamily, TPP-binding module; composed of proteins
similar to Pseudomonas putida benzoylformate
decarboxylase (BFDC). P. putida BFDC plays a role in the
mandelate pathway, catalyzing the conversion of
benzoylformate to benzaldehyde and carbon dioxide. This
enzyme is dependent on TPP and a divalent metal cation
as cofactors.
Length = 178
Score = 31.8 bits (73), Expect = 0.10
Identities = 20/79 (25%), Positives = 29/79 (36%), Gaps = 12/79 (15%)
Query: 40 HPTPRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGES--AEGSIWEAL 97
T ++ + G LG GL A G A + ++GDG ++W A
Sbjct: 36 PLTRPGSYFTLRGGGLGWGLPAAVGAA-----LANPDRKVVAIIGDGSFMYTIQALWTAA 90
Query: 98 HFASYYKLDNLCVIFDINR 116
Y L VI + NR
Sbjct: 91 R----YGLPVTVVILN-NR 104
>gnl|CDD|178194 PLN02582, PLN02582, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 677
Score = 32.6 bits (74), Expect = 0.11
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 51 GTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLD-NLC 109
GTG +S GMA VG+ ++GDG G +EA++ A Y LD ++
Sbjct: 142 GTGHSSTTISAGLGMA-VGRDLKGKKNNVVAVIGDGAMTAGQAYEAMNNAGY--LDSDMI 198
Query: 110 VIFDINR 116
VI + N+
Sbjct: 199 VILNDNK 205
>gnl|CDD|218441 pfam05112, Baculo_p47, Baculovirus P47 protein. This family
consists of several Baculovirus P47 proteins which is
one of the primary components of Baculovirus encoded RNA
polymerase, which initiates transcription from late and
very late promoters.
Length = 313
Score = 30.7 bits (70), Expect = 0.30
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 105 LDNLCVIFDINRLGQSEPTSLQHQTEVYRKRLDA 138
+ V+FDI+ L S P L +V R RL
Sbjct: 57 IKCTFVVFDIDNLTTSTPEDLDLYVDVTRPRLSD 90
>gnl|CDD|235379 PRK05261, PRK05261, putative phosphoketolase; Provisional.
Length = 785
Score = 30.9 bits (71), Expect = 0.32
Identities = 18/38 (47%), Positives = 19/38 (50%), Gaps = 6/38 (15%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAE 90
G LG LS A G A FD C+VGDGE AE
Sbjct: 142 GELGYSLSHAYGAA-----FDNPDLIVACVVGDGE-AE 173
>gnl|CDD|237267 PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1;
Provisional.
Length = 896
Score = 30.3 bits (69), Expect = 0.50
Identities = 29/87 (33%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 37 LEGHPTPRL--NFIDVGTGSLGQGLSVAAGMAYVGKYF------DKASYRTYCLVGDGES 88
L +P P L +F TGS+G G A A +Y D + + + GDGE
Sbjct: 185 LSSYPHPWLMPDFWQFPTGSMGIGPINAIYQARFMRYLQHRGLKDTSGRKVWGFFGDGEM 244
Query: 89 AEGSIWEALHFASYYKLDNLCVIFDIN 115
E AL A+ LDNL +F IN
Sbjct: 245 DEPESIAALSLAAREGLDNL--VFVIN 269
>gnl|CDD|180820 PRK07064, PRK07064, hypothetical protein; Provisional.
Length = 544
Score = 30.0 bits (68), Expect = 0.64
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 6/45 (13%)
Query: 42 TPRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDG 86
PR N +G G +GQGL++A G A G +T LVGDG
Sbjct: 395 EPRANVHALG-GGIGQGLAMAIGAALAGP-----GRKTVGLVGDG 433
>gnl|CDD|227115 COG4774, Fiu, Outer membrane receptor for monomeric catechols
[Inorganic ion transport and metabolism].
Length = 750
Score = 29.8 bits (67), Expect = 0.75
Identities = 26/103 (25%), Positives = 37/103 (35%), Gaps = 11/103 (10%)
Query: 5 EIPFRTNRSKAWAEAGLFPV--SELKNLRKIDSDLEGHP---TPRLNFIDVGTGSLGQGL 59
E+ N + AW G + SE+K + + D G TP F T L G+
Sbjct: 606 ELSVSGNITPAWQVFGGYTYLDSEIKKGKDVSQD-GGSSLPYTPEHAFTLWSTYQLTDGI 664
Query: 60 SVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASY 102
++ G YVGK + G E + W SY
Sbjct: 665 TLGGGARYVGKMHKGSD----GANGTPAYIE-AYWVYDAMLSY 702
>gnl|CDD|132230 TIGR03186, AKGDH_not_PDH, alpha-ketoglutarate dehydrogenase.
Several bacterial species have a paralog to homodimeric
form of the pyruvate dehydrogenase E1 component (see
model TIGR00759), often encoded next to L-methionine
gamma-lyase gene (mdeA). The member from a strain of
Pseudomonas putida was shown to act on
alpha-ketobutyrate, which is produced by MdeA.This model
serves as an exception model to TIGR00759, as other
proteins hitting TIGR00759 should be identified as the
pyruvate dehydrogenase E1 component.
Length = 889
Score = 28.7 bits (64), Expect = 1.9
Identities = 26/87 (29%), Positives = 36/87 (41%), Gaps = 8/87 (9%)
Query: 37 LEGHPTPRL--NFIDVGTGSLGQGLSVAAGMAYVGKYFDKASY------RTYCLVGDGES 88
L +P P L +F TGS+G G A A +Y + + GDGE
Sbjct: 171 LCSYPHPWLMPDFWQFPTGSMGIGPINAIYQARFMRYLQNRGLARTEGRKVWGFFGDGEM 230
Query: 89 AEGSIWEALHFASYYKLDNLCVIFDIN 115
E AL A+ +LDNL + + N
Sbjct: 231 DEPESIGALSLAARERLDNLVFVINCN 257
>gnl|CDD|234786 PRK00517, prmA, ribosomal protein L11 methyltransferase; Reviewed.
Length = 250
Score = 27.8 bits (63), Expect = 2.4
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 37 LEGHPTPRLNFIDVGTGSLGQG-LSVAA 63
LE P +DVG GS G L++AA
Sbjct: 113 LEKLVLPGKTVLDVGCGS---GILAIAA 137
>gnl|CDD|238966 cd02008, TPP_IOR_alpha, Thiamine pyrophosphate (TPP) family,
IOR-alpha subfamily, TPP-binding module; composed of
proteins similar to indolepyruvate ferredoxin
oxidoreductase (IOR) alpha subunit. IOR catalyzes the
oxidative decarboxylation of arylpyruvates, such as
indolepyruvate or phenylpyruvate, which are generated by
the transamination of aromatic amino acids, to the
corresponding aryl acetyl-CoA.
Length = 178
Score = 27.6 bits (62), Expect = 2.6
Identities = 35/126 (27%), Positives = 49/126 (38%), Gaps = 20/126 (15%)
Query: 43 PRLNFIDVGTGSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASY 102
P LN ID +G + VA GMA + DK + ++GD I L A Y
Sbjct: 42 PPLNAID-TCTCMGASIGVAIGMAKASE--DK---KVVAVIGDSTFFHSGI-LGLINAVY 94
Query: 103 YKLDNLCVIFDINRL-----GQSEPTSLQHQTEVYRKRLDAFGFNAV-VVDGHDVEHLVK 156
K + VI D NR GQ P + + TE + +V V+ +V
Sbjct: 95 NKANITVVILD-NRTTAMTGGQPHPGTGKTLTE------PTTVIDIEALVRAIGVKRVVV 147
Query: 157 VSSFKL 162
V + L
Sbjct: 148 VDPYDL 153
>gnl|CDD|236714 PRK10557, PRK10557, hypothetical protein; Provisional.
Length = 192
Score = 27.2 bits (61), Expect = 4.0
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 95 EALHFASYYKLDNLCVI--FDINRLGQSEP 122
E L A+ + C+I +D+N G+ E
Sbjct: 76 EGLEIANPGEAQGSCLIVAWDLNSNGRWEG 105
>gnl|CDD|236063 PRK07586, PRK07586, hypothetical protein; Validated.
Length = 514
Score = 27.1 bits (61), Expect = 5.0
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 6/37 (16%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESA 89
G++GQGL +A G A + L GDG SA
Sbjct: 385 GAIGQGLPLATGAAVAC-----PDRKVLALQGDG-SA 415
>gnl|CDD|236551 PRK09533, PRK09533, bifunctional transaldolase/phosoglucose
isomerase; Validated.
Length = 948
Score = 27.2 bits (61), Expect = 5.4
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 130 EVYRKRLDAF--GFNAVVVDGHDVEHLVKVSSF 160
+VY + +A+ G A G D H+ V+SF
Sbjct: 170 DVYEEVAEAYISGLEARAAKGGDPSHVASVASF 202
>gnl|CDD|221556 pfam12392, DUF3656, Collagenase. This domain family is found in
bacteria, archaea and eukaryotes, and is approximately
120 amino acids in length. The family is found in
association with pfam01136.
Length = 122
Score = 26.3 bits (59), Expect = 6.0
Identities = 13/32 (40%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 1 MKTNEIPFRTNRSKAWAEAGLF-PVSELKNLR 31
K PF + + GLF PVSEL LR
Sbjct: 76 GKLGNTPFELEELEIDLDGGLFLPVSELNELR 107
>gnl|CDD|139002 PRK12474, PRK12474, hypothetical protein; Provisional.
Length = 518
Score = 26.8 bits (59), Expect = 7.5
Identities = 24/64 (37%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 53 GSLGQGLSVAAGMAYVGKYFDKASYRTYCLVGDGESAEGSIWEALHFASYYKLDNLCVIF 112
GS+GQGL +AAG A + C GDG +A +AL + LD VIF
Sbjct: 389 GSIGQGLPLAAGAAVAA-----PDRKVVCPQGDGGAA--YTMQALWTMARENLDVTVVIF 441
Query: 113 DINR 116
NR
Sbjct: 442 A-NR 444
>gnl|CDD|224032 COG1107, COG1107, Archaea-specific RecJ-like exonuclease, contains
DnaJ-type Zn finger domain [DNA replication,
recombination, and repair].
Length = 715
Score = 26.6 bits (59), Expect = 7.8
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 17/65 (26%)
Query: 100 ASYYKLDNLCVIFDIN-------RLGQSEPT-------SLQHQTEVYRKRLDAFGFNAVV 145
A +Y+L++ V D+N R GQ P S + ++ L A+G + VV
Sbjct: 392 APFYELED--VTRDLNFALEDAHRHGQKLPLLVLVDNGSTEEDIPAIKQ-LKAYGIDIVV 448
Query: 146 VDGHD 150
VD H
Sbjct: 449 VDHHY 453
>gnl|CDD|129553 TIGR00461, gcvP, glycine dehydrogenase (decarboxylating). This
apparently ubiquitous enzyme is found in bacterial,
mammalian and plant sources. The enzyme catalyzes the
reaction: GLYCINE + LIPOYLPROTEIN =
S-AMINOMETHYL-DIHYDROLIPOYLPROTEIN + CO2. It is part of
the glycine decarboxylase multienzyme complex (GDC)
consisting of four proteins P, H, L and T. Active site
in E.coli is located as the (K) residues at position 713
of the SEED alignment [Energy metabolism, Amino acids
and amines].
Length = 939
Score = 26.8 bits (59), Expect = 7.9
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 125 LQHQT-EVYRKRLDAFGFNAVVVDGHDVEHLVKVSSFKLQ 163
L QT V R FG +VVD D++ V V LQ
Sbjct: 162 LHPQTKSVLHTRAKPFGIEVIVVDCSDIKKAVDVFGCLLQ 201
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
0.321 0.137 0.424
Gapped
Lambda K H
0.267 0.0909 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,982,236
Number of extensions: 815521
Number of successful extensions: 749
Number of sequences better than 10.0: 1
Number of HSP's gapped: 704
Number of HSP's successfully gapped: 60
Length of query: 176
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 86
Effective length of database: 6,945,742
Effective search space: 597333812
Effective search space used: 597333812
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: 56 (25.0 bits)