RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 038938
(194 letters)
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 208 bits (531), Expect = 2e-67
Identities = 115/225 (51%), Positives = 144/225 (64%), Gaps = 41/225 (18%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S RI SMI DAE+KG I PG+ +VL+E TS N GIGLA +A+++GYK+I+ MP +
Sbjct: 44 SVKDRIGYSMITDAEEKGLIKPGE--SVLIEPTSGNTGIGLAFMAAAKGYKLIITMPASM 101
Query: 68 SIQRRM-----------------------------SKIPNAYLLQQHENPANPK------ 92
S++RR+ +K PN+Y+LQQ ENPANPK
Sbjct: 102 SLERRIILLAFGAELVLTDPAKGMKGAVQKAEEILAKTPNSYILQQFENPANPKIHYETT 161
Query: 93 ---IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLH 149
IWK +GGK DA V+GI TGGTITGA K+LKE+N ++K+YG+E VESAVL+GGKPG H
Sbjct: 162 GPEIWKGTGGKVDAFVSGIGTGGTITGAGKYLKEQNPDIKLYGVEPVESAVLSGGKPGPH 221
Query: 150 LIQGIGIGIIPTVLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
IQGIG G IP VLD+ +LDEV V + ET K LALK GLL
Sbjct: 222 KIQGIGAGFIPGVLDVDLLDEVVQVSSDEAI-ETAKLLALKEGLL 265
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 199 bits (507), Expect = 1e-63
Identities = 114/225 (50%), Positives = 140/225 (62%), Gaps = 41/225 (18%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S RIA SMIKDAEDKG I+PGK + L+E T+ N GIGLA I ++RGYK+I+ MP+T
Sbjct: 46 SVKDRIAYSMIKDAEDKGLITPGK--STLIEATAGNTGIGLACIGAARGYKVILVMPSTM 103
Query: 68 SIQRR-----------------------------MSKIPNAYLLQQHENPANPK------ 92
S++RR +SK P Y+ QQ ENPANP+
Sbjct: 104 SLERRIILRALGAEVHLTDQSIGLKGMLEKAEEILSKTPGGYIPQQFENPANPEIHYRTT 163
Query: 93 ---IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLH 149
IW+DS GK D LVAG+ TGGT TG KFLKEKN ++KV +E VESAVL+GG+PG H
Sbjct: 164 GPEIWRDSAGKVDILVAGVGTGGTATGVGKFLKEKNKDIKVCVVEPVESAVLSGGQPGPH 223
Query: 150 LIQGIGIGIIPTVLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
LIQGIG GIIP LD+ ++DE+ V + ET K LALK GLL
Sbjct: 224 LIQGIGSGIIPFNLDLTIVDEIIQVTGEEAI-ETAKLLALKEGLL 267
>gnl|CDD|107204 cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine
beta-synthase (CBS) and Cysteine synthase. CBS is a
unique heme-containing enzyme that catalyzes a pyridoxal
5'-phosphate (PLP)-dependent condensation of serine and
homocysteine to give cystathionine. Deficiency of CBS
leads to homocystinuria, an inherited disease of sulfur
metabolism characterized by increased levels of the
toxic metabolite homocysteine. Cysteine synthase on the
other hand catalyzes the last step of cysteine
biosynthesis. This subgroup also includes an
O-Phosphoserine sulfhydrylase found in hyperthermophilic
archaea which produces L-cysteine from sulfide and the
more thermostable O-phospho-L-serine.
Length = 291
Score = 187 bits (477), Expect = 2e-59
Identities = 88/228 (38%), Positives = 122/228 (53%), Gaps = 54/228 (23%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
RIA MI+DAE +G + PG ++E TS N GIGLA +A+++GY+ I+ MP T S ++
Sbjct: 35 RIALYMIEDAEKRGLLKPGT---TIIEPTSGNTGIGLAMVAAAKGYRFIIVMPETMSEEK 91
Query: 72 RM-------------------------------SKIPNAYLLQQHENPANPK-------- 92
R ++ PNA+ L Q ENPANP+
Sbjct: 92 RKLLRALGAEVILTPEAEADGMKGAIAKARELAAETPNAFWLNQFENPANPEAHYETTAP 151
Query: 93 -IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLHLI 151
IW+ GK DA VAG+ TGGTITG ++LKEKN +++ G++ V S + +GG PG H I
Sbjct: 152 EIWEQLDGKVDAFVAGVGTGGTITGVARYLKEKNPNVRIVGVDPVGSVLFSGGPPGPHKI 211
Query: 152 QGIGIGIIPTVLDIKMLDEVKTVLLCHVVT-----ETTKRLALKGGLL 194
+GIG G IP LD ++DEV V+ +RLA + GLL
Sbjct: 212 EGIGAGFIPENLDRSLIDEV------VRVSDEEAFAMARRLAREEGLL 253
>gnl|CDD|233288 TIGR01139, cysK, cysteine synthase A. This model distinguishes
cysteine synthase A (CysK) from cysteine synthase B
(CysM). CysM differs in having a broader specificity
that also allows the use of thiosulfate to produce
cysteine thiosulfonate [Amino acid biosynthesis, Serine
family].
Length = 298
Score = 186 bits (475), Expect = 3e-59
Identities = 100/226 (44%), Positives = 130/226 (57%), Gaps = 43/226 (19%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S RIA +MI DAE +G + PGK +VE TS N GI LA +A++RGYK+I+ MP T
Sbjct: 35 SVKDRIALNMIWDAEKRGLLKPGK---TIVEPTSGNTGIALAMVAAARGYKLILTMPETM 91
Query: 68 SIQRRM-----------------------------SKIPNAY-LLQQHENPANPK----- 92
SI+RR + PN+Y +LQQ ENPANP+
Sbjct: 92 SIERRKLLKAYGAELVLTPGAEGMKGAIAKAEEIAASTPNSYFMLQQFENPANPEIHRKT 151
Query: 93 ----IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGL 148
IW+D+ GK DA VAG+ TGGTITG + LKE+ +K+ +E ES VL+GGKPG
Sbjct: 152 TGPEIWRDTDGKLDAFVAGVGTGGTITGVGEVLKEQKPNIKIVAVEPAESPVLSGGKPGP 211
Query: 149 HLIQGIGIGIIPTVLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
H IQGIG G IP L+ ++DEV TV + ET +RLA + G+L
Sbjct: 212 HKIQGIGAGFIPKNLNRSVIDEVITVSDEEAI-ETARRLAAEEGIL 256
>gnl|CDD|233286 TIGR01136, cysKM, cysteine synthase. This model discriminates
cysteine synthases (EC 2.5.1.47) (both CysK and CysM)
from cystathionine beta-synthase, a protein found
primarily in eukaryotes and carrying a C-terminal CBS
domain lacking from this protein. Bacterial proteins
lacking the CBS domain but otherwise showing
resemblamnce to cystathionine beta-synthases and
considerable phylogenetic distance from known cysteine
synthases were excluded from the seed and score below
the trusted cutoff [Amino acid biosynthesis, Serine
family].
Length = 299
Score = 180 bits (458), Expect = 1e-56
Identities = 91/223 (40%), Positives = 127/223 (56%), Gaps = 46/223 (20%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
RIA SMI+DAE +G + PG ++E TS N GI LA +A+++GYK+I+ MP T S++R
Sbjct: 40 RIALSMIEDAEKRGLLKPGD---TIIEATSGNTGIALAMVAAAKGYKLILTMPETMSLER 96
Query: 72 RM-----------------------------SKIPNAYLLQQHENPANPK---------I 93
R ++ +L Q ENPANP+ I
Sbjct: 97 RKLLRAYGAELILTPAEEGMKGAIDKAEELAAETNKYVMLDQFENPANPEAHYKTTGPEI 156
Query: 94 WKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLHLIQG 153
W+D+ G+ D VAG+ TGGTITG ++LKE+N +K+ +E ES VL+GG+PG H IQG
Sbjct: 157 WRDTDGRIDHFVAGVGTGGTITGVGRYLKEQNPNIKIVAVEPAESPVLSGGEPGPHKIQG 216
Query: 154 IGIGIIPTVLDIKMLDEVKTVLLCHVVT--ETTKRLALKGGLL 194
IG G IP +LD+ ++DEV TV ET +RLA + G+L
Sbjct: 217 IGAGFIPKILDLSLIDEVITV---SDEDAIETARRLAREEGIL 256
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 178 bits (452), Expect = 2e-54
Identities = 108/225 (48%), Positives = 134/225 (59%), Gaps = 41/225 (18%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S RI SM+ DAE KG ISPGK +VLVE TS N GIGLA IA+SRGY++I+ MP +
Sbjct: 152 SVKDRIGYSMVTDAEQKGFISPGK--SVLVEPTSGNTGIGLAFIAASRGYRLILTMPASM 209
Query: 68 SIQRR-----------------------------MSKIPNAYLLQQHENPANPKI----- 93
S++RR + P+AY+LQQ +NPANPKI
Sbjct: 210 SMERRVLLKAFGAELVLTDPAKGMTGAVQKAEEILKNTPDAYMLQQFDNPANPKIHYETT 269
Query: 94 ----WKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLH 149
W D+ GK D VAGI TGGTITG +F+KEKN + +V G+E ES +L+GGKPG H
Sbjct: 270 GPEIWDDTKGKVDIFVAGIGTGGTITGVGRFIKEKNPKTQVIGVEPTESDILSGGKPGPH 329
Query: 150 LIQGIGIGIIPTVLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
IQGIG G IP LD K++DEV + ET K+LALK GL+
Sbjct: 330 KIQGIGAGFIPKNLDQKIMDEV-IAISSEEAIETAKQLALKEGLM 373
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 167 bits (425), Expect = 5e-51
Identities = 90/225 (40%), Positives = 127/225 (56%), Gaps = 41/225 (18%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S R A +MI+DAE K I+PGK L+E TS N GI LA +A+ +GYK+I+ MP+
Sbjct: 88 SIKDRPALAMIEDAEKKNLITPGK--TTLIEPTSGNMGISLAFMAAMKGYKMILTMPSYT 145
Query: 68 SIQRRMS-----------------------------KIPNAYLLQQHENPAN-------- 90
S++RR++ P+A++LQQ NPAN
Sbjct: 146 SLERRVTMRAFGAELVLTDPTKGMGGTVKKAYELLESTPDAFMLQQFSNPANTQVHFETT 205
Query: 91 -PKIWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLH 149
P+IW+D+ G+ D V GI +GGT++G K+LK KN +K+YG+E ES VLNGGKPG H
Sbjct: 206 GPEIWEDTLGQVDIFVMGIGSGGTVSGVGKYLKSKNPNVKIYGVEPAESNVLNGGKPGPH 265
Query: 150 LIQGIGIGIIPTVLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
I G G+G P +LD+ ++++V V V + LALK GL+
Sbjct: 266 HITGNGVGFKPDILDMDVMEKVLEVSSEDAV-NMARELALKEGLM 309
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 162 bits (413), Expect = 1e-49
Identities = 86/228 (37%), Positives = 123/228 (53%), Gaps = 55/228 (24%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
RIA MI+DAE +G + PG +VE TS N GI LA +A+++GY++I+ MP T S +R
Sbjct: 44 RIALYMIEDAEKRGLLKPGG---TIVEATSGNTGIALAMVAAAKGYRLIIVMPETMSQER 100
Query: 72 R------------------------------MSKIPN-AYLLQQHENPANPK-------- 92
R ++IP A L Q ENPANP+
Sbjct: 101 RKLLRALGAEVILTPGAPGNMKGAIERAKELAAEIPGYAVWLNQFENPANPEAHYETTGP 160
Query: 93 -IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGLHLI 151
IW+ + GK DA VAG+ TGGTITG ++LKE+N +++ ++ S +L+GG+ G H I
Sbjct: 161 EIWQQTDGKVDAFVAGVGTGGTITGVARYLKERNPNVRIVAVDPEGSVLLSGGE-GPHKI 219
Query: 152 QGIGIGIIPTVLDIKMLDEVKTVLLCHVVT-----ETTKRLALKGGLL 194
+GIG G +P LD+ ++DEV V+ T +RLA + GLL
Sbjct: 220 EGIGAGFVPENLDLDLIDEV------IRVSDEEAIATARRLAREEGLL 261
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 123 bits (310), Expect = 3e-34
Identities = 62/211 (29%), Positives = 94/211 (44%), Gaps = 54/211 (25%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
R A ++I DAE +G + PG +VE T+ N GIGLA +A++RGYK ++ MP T S ++
Sbjct: 46 RAALNIIWDAEKRGLLKPGG---TIVEGTAGNTGIGLALVAAARGYKTVIVMPETQSQEK 102
Query: 72 R------------------------------------MSKIPNAYLLQQHENPAN----- 90
+ S+ A Q +NPAN
Sbjct: 103 KDLLRALGAELVLVPAAPYANPNNYVKGAGRLAEELVASEPNGAIWANQFDNPANREAHY 162
Query: 91 ----PKIWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESA----VLN 142
P+IW+ + GK D V + TGGT+ G ++LKE N ++K+ + SA
Sbjct: 163 ETTGPEIWEQTDGKVDGFVCAVGTGGTLAGVSRYLKETNPKVKIVLADPTGSALYSYYKT 222
Query: 143 G--GKPGLHLIQGIGIGIIPTVLDIKMLDEV 171
G G + +GIG G I L+ +D+
Sbjct: 223 GELKAEGSSITEGIGQGRITANLEGAPIDDA 253
>gnl|CDD|233287 TIGR01137, cysta_beta, cystathionine beta-synthase. Members of
this family closely resemble cysteine synthase but
contain an additional C-terminal CBS domain. The
function of any bacterial member included in this family
is proposed but not proven [Amino acid biosynthesis,
Serine family].
Length = 454
Score = 121 bits (305), Expect = 1e-32
Identities = 70/210 (33%), Positives = 104/210 (49%), Gaps = 51/210 (24%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S RIA MI+DAE G + PG + ++E TS N GIGLA +A+ +GYK I+ +P
Sbjct: 40 SVKDRIALRMIEDAEASGRLKPG---DTIIEPTSGNTGIGLALVAAIKGYKCIIVLPEKM 96
Query: 68 SIQRR--------------------------------MSKIPNAYLLQQHENPANP---- 91
S ++ + +IP A++L Q+ NP+NP
Sbjct: 97 SNEKVDVLKALGAEIVRTPTAAAFDSPESHIGVAKRLVREIPGAHILDQYNNPSNPLAHY 156
Query: 92 -----KIWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKP 146
+I + GK D VAG TGGTITG ++LKE N + ++ G + E ++L +
Sbjct: 157 DGTGPEILEQCEGKLDMFVAGAGTGGTITGIARYLKESNPKCRIVGADP-EGSILAQPEN 215
Query: 147 ------GLHLIQGIGIGIIPTVLDIKMLDE 170
+ ++GIG IPTVLD K++DE
Sbjct: 216 LNKTGRTPYKVEGIGYDFIPTVLDRKVVDE 245
>gnl|CDD|234409 TIGR03945, PLP_SbnA_fam, 2,3-diaminopropionate biosynthesis protein
SbnA. Members of this family include SbnA, a protein of
the staphyloferrin B biosynthesis operon of
Staphylococcus aureus. SbnA and SbnB together appear to
synthesize 2,3-diaminopropionate, a precursor of certain
siderophores and other secondary metabolites. SbnA is a
pyridoxal phosphate-dependent enzyme [Cellular
processes, Biosynthesis of natural products].
Length = 304
Score = 106 bits (266), Expect = 6e-28
Identities = 65/234 (27%), Positives = 102/234 (43%), Gaps = 58/234 (24%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYK-IIVKMPNT 66
S R A +++ A +G I+PG ++E +S N GI LA I + +G + I V PN
Sbjct: 36 SIKDRPALYILEAAIKRGRITPGT---TIIESSSGNLGIALAMICAYKGLRFICVVDPNI 92
Query: 67 YS--------------------------------IQRRMSKIPNAYLLQQHENPANPKIW 94
++ ++ IP+AY Q+ NP NP+
Sbjct: 93 SPQNLKLLRAYGAEVEKVTEPDETGGYLGTRIARVRELLASIPDAYWPNQYANPDNPRAH 152
Query: 95 KDSGGK--------FDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKP 146
G+ D L G+ T GT+ G + L+E+ KV +++V S V+ GG P
Sbjct: 153 YHGTGREIARAFPPLDYLFVGVSTTGTLMGCSRRLRERGPNTKVIAVDAVGS-VIFGGPP 211
Query: 147 GLHLIQGIGIGIIPTVLDIKMLDEV------KTVLLCHVVTETTKRLALKGGLL 194
G I G+G ++P +LD ++D+V TV C RLA + G+L
Sbjct: 212 GRRHIPGLGASVVPELLDESLIDDVVHVPEYDTVAGCR-------RLARREGIL 258
>gnl|CDD|130208 TIGR01138, cysM, cysteine synthase B. CysM differs from CysK in
that it can also use thiosulfate instead of sulfide, to
produce cysteine thiosulfonate instead of cysteine.
Alternate name: O-acetylserine (thiol)-lyase [Amino acid
biosynthesis, Serine family].
Length = 290
Score = 99.6 bits (248), Expect = 1e-25
Identities = 62/203 (30%), Positives = 92/203 (45%), Gaps = 51/203 (25%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S R A SMI +AE +G I PG VL+E TS N GI LA IA+ +GY++ + MP+
Sbjct: 37 SVKDRPALSMIVEAEKRGEIKPGD---VLIEATSGNTGIALAMIAALKGYRMKLLMPDNM 93
Query: 68 SIQRRMSKIPNAY------------------------------LLQQHENPANPK----- 92
S +R+ AY LL Q NP NP
Sbjct: 94 SQERK--AAMRAYGAELILVTKEEGMEGARDLALELANRGEGKLLDQFNNPDNPYAHYTS 151
Query: 93 ----IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPGL 148
IW+ +GG+ V+ + T GTI G +FLKE+N +++ G++ E + + G
Sbjct: 152 TGPEIWQQTGGRITHFVSSMGTTGTIMGVSRFLKEQNPPVQIVGLQPEEGSSIPG----- 206
Query: 149 HLIQGIGIGIIPTVLDIKMLDEV 171
I+ +P + D ++D V
Sbjct: 207 --IRRWPTEYLPGIFDASLVDRV 227
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 98.0 bits (245), Expect = 5e-25
Identities = 53/169 (31%), Positives = 77/169 (45%), Gaps = 48/169 (28%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
R A SMI AE +G I PG + L+E TS N GI LA IA+ +GY++ + MP S +R
Sbjct: 45 RPALSMIVQAEKRGEIKPG---DTLIEATSGNTGIALAMIAAIKGYRMKLIMPENMSQER 101
Query: 72 R--MSKIPNAY------------------------------LLQQHENPANPK------- 92
R M AY +L Q NP NP
Sbjct: 102 RAAMR----AYGAELILVPKEQGMEGARDLALQMQAEGEGKVLDQFANPDNPLAHYETTG 157
Query: 93 --IWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESA 139
IW+ + G+ V+ + T GTI G ++LKE+N +++ G++ E +
Sbjct: 158 PEIWRQTEGRITHFVSSMGTTGTIMGVSRYLKEQNPAVQIVGLQPEEGS 206
>gnl|CDD|107202 cd00640, Trp-synth-beta_II, Tryptophan synthase beta superfamily
(fold type II); this family of pyridoxal phosphate
(PLP)-dependent enzymes catalyzes beta-replacement and
beta-elimination reactions. This CD corresponds to
aminocyclopropane-1-carboxylate deaminase (ACCD),
tryptophan synthase beta chain (Trp-synth_B),
cystathionine beta-synthase (CBS), O-acetylserine
sulfhydrylase (CS), serine dehydratase (Ser-dehyd),
threonine dehydratase (Thr-dehyd), diaminopropionate
ammonia lyase (DAL), and threonine synthase (Thr-synth).
ACCD catalyzes the conversion of
1-aminocyclopropane-1-carboxylate to alpha-ketobutyrate
and ammonia. Tryptophan synthase folds into a tetramer,
where the beta chain is the catalytic PLP-binding
subunit and catalyzes the formation of L-tryptophan from
indole and L-serine. CBS is a tetrameric hemeprotein
that catalyzes condensation of serine and homocysteine
to cystathionine. CS is a homodimer that catalyzes the
formation of L-cysteine from O-acetyl-L-serine.
Ser-dehyd catalyzes the conversion of L- or D-serine to
pyruvate and ammonia. Thr-dehyd is active as a homodimer
and catalyzes the conversion of L-threonine to
2-oxobutanoate and ammonia. DAL is also a homodimer and
catalyzes the alpha, beta-elimination reaction of both
L- and D-alpha, beta-diaminopropionate to form pyruvate
and ammonia. Thr-synth catalyzes the formation of
threonine and inorganic phosphate from
O-phosphohomoserine.
Length = 244
Score = 83.7 bits (208), Expect = 5e-20
Identities = 47/159 (29%), Positives = 68/159 (42%), Gaps = 40/159 (25%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
R A ++I AE++G + G V++E T N GI LA+ A+ G K + MP S ++
Sbjct: 33 RGALNLILLAEEEGKLPKG----VIIESTGGNTGIALAAAAARLGLKCTIVMPEGASPEK 88
Query: 72 R---------------------------MSKIPNAYLLQQHENPANPK--------IWKD 96
+ P AY + Q +NPAN I +
Sbjct: 89 VAQMRALGAEVVLVPGDFDDAIALAKELAEEDPGAYYVNQFDNPANIAGQGTIGLEILEQ 148
Query: 97 SGG-KFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIE 134
GG K DA+V + GG I G + LKE +KV G+E
Sbjct: 149 LGGQKPDAVVVPVGGGGNIAGIARALKELLPNVKVIGVE 187
>gnl|CDD|215840 pfam00291, PALP, Pyridoxal-phosphate dependent enzyme. Members of
this family are all pyridoxal-phosphate dependent
enzymes. This family includes: serine dehydratase
EC:4.2.1.13 P20132, threonine dehydratase EC:4.2.1.16,
tryptophan synthase beta chain EC:4.2.1.20, threonine
synthase EC:4.2.99.2, cysteine synthase EC:4.2.99.8
P11096, cystathionine beta-synthase EC:4.2.1.22,
1-aminocyclopropane-1-carboxylate deaminase EC:4.1.99.4.
Length = 295
Score = 68.6 bits (168), Expect = 4e-14
Identities = 52/236 (22%), Positives = 86/236 (36%), Gaps = 63/236 (26%)
Query: 12 RIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQR 71
R A ++ A ++G +VE +S N G LA+ A+ G K+ + +P S +
Sbjct: 38 RGAAYLLLRALERG--------ATVVEASSGNTGRALAAAAARLGLKVTIVVPEGASPGK 89
Query: 72 RM--------------------------------SKIPNAYLLQQHENPAN--------P 91
+ + L Q+ NP
Sbjct: 90 LLLMRALGAEVILVVSEGDYDDALELAEEAAELLAAYDGPIPLGQYNNPNVIAGYKTIGL 149
Query: 92 KIWKDSG-GKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGG------ 144
+I + G G DA+V + GG G + LKE ++V G+E + L
Sbjct: 150 EILEQLGQGDPDAVVVPVGGGGLAAGIARGLKELGPGIRVIGVEPEGAPALARSLEAGRR 209
Query: 145 KPGLHLIQGIGIGII-PTVLDIKMLDEVKTVLLCHVVT-----ETTKRLALKGGLL 194
P I G+G GI L ++++DE V + V+ E + LA + G+L
Sbjct: 210 VPKPTTIAGLGPGIPLDGELALELIDEY--VGDVYAVSDEEALEAIRLLARREGIL 263
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 52.3 bits (125), Expect = 3e-08
Identities = 30/91 (32%), Positives = 43/91 (47%), Gaps = 14/91 (15%)
Query: 61 VKMPNTYSIQRRMSKIPNAYLLQQHENPAN---------PKIWKDSGGKFDALVAGIRTG 111
K + +S S + Q EN AN P+IW+ + G DA VA TG
Sbjct: 207 EKENSLFS-----SSCTGGFFADQFENLANFRAHYEGTGPEIWEQTQGNLDAFVAAAGTG 261
Query: 112 GTITGAEKFLKEKNLEMKVYGIESVESAVLN 142
GT+ G +FL+EKN +K + I+ S + N
Sbjct: 262 GTLAGVSRFLQEKNPNIKCFLIDPPGSGLFN 292
Score = 34.2 bits (78), Expect = 0.029
Identities = 19/64 (29%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 8 STPSRIACSMIKDAEDKGSISPGKQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTY 67
S R+A +I++A + G + PG V+ E ++ + I LA++A + G K V +P+
Sbjct: 82 SVKDRVAVKIIEEALESGQLFPG---GVVTEGSAGSTAISLATVAPAYGCKCHVVIPDDV 138
Query: 68 SIQR 71
+I++
Sbjct: 139 AIEK 142
>gnl|CDD|131079 TIGR02024, FtcD, glutamate formiminotransferase. This model
represents the tetrahydrofolate (THF) dependent
glutamate formiminotransferase involved in the histidine
utilization pathway. This enzyme interconverts
L-glutamate and N-formimino-L-glutamate. The enzyme is
bifunctional as it also catalyzes the cyclodeaminase
reaction on N-formimino-THF, converting it to
5,10-methenyl-THF and releasing ammonia - part of the
process of regenerating THF. This model covers enzymes
from metazoa as well as gram-positive bacteria and
archaea. In humans, deficiency of this enzyme results in
a disease phenotype. The crystal structure of the enzyme
has been studied in the context of the catalytic
mechanism [Energy metabolism, Amino acids and amines].
Length = 298
Score = 33.2 bits (76), Expect = 0.066
Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 15/93 (16%)
Query: 111 GGTITGAEKFLKEKNLEMKVYGIESVESAVLN----GGKPGLHLIQGIGI-----GIIPT 161
G T TGA KFL N+ + +E + GG GL ++ IG+ ++
Sbjct: 172 GATATGARKFLIAFNVNLGTSNLEIAKKIAKAIRFQGG--GLRFVKAIGLYLEEKNLVQ- 228
Query: 162 VLDIKMLDEVKTVLLCHVVTETTKRLALKGGLL 194
+ + + + KT L + V E K A + G+
Sbjct: 229 -VSMNLTNYEKTPL--YRVFELIKMEAQRYGVP 258
>gnl|CDD|130194 TIGR01124, ilvA_2Cterm, threonine ammonia-lyase, biosynthetic, long
form. This model describes a form of threonine
ammonia-lyase, a pyridoxal-phosphate dependent enzyme,
with two copies of the threonine dehydratase C-terminal
domain (pfam00585). Members with known function
participate in isoleucine biosynthesis and are inhibited
by isoleucine. Alternate name: threonine deaminase,
threonine dehydratase. Forms scoring between the trusted
and noise cutoff tend to branch with this subgroup of
threonine ammonia-lyase phylogenetically but have only a
single copy of the C-terminal domain [Amino acid
biosynthesis, Pyruvate family].
Length = 499
Score = 31.2 bits (71), Expect = 0.36
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 18/80 (22%)
Query: 81 LLQQHENPANPKIWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAV 140
+L+Q NP DA+ + GG G +K+ E+KV G+E +S
Sbjct: 159 ILRQVANP------------LDAVFVPVGGGGLAAGVAALIKQLMPEIKVIGVEPTDSDC 206
Query: 141 ----LNGGKPGLHLIQGIGI 156
L+ G+P + L Q +G+
Sbjct: 207 MKQALDAGEP-VDLDQ-VGL 224
>gnl|CDD|234964 PRK01611, argS, arginyl-tRNA synthetase; Reviewed.
Length = 507
Score = 30.1 bits (69), Expect = 0.79
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 14/59 (23%)
Query: 16 SMIKDAEDKGSISPGKQYNVLVEITSAN-AG-----------IG--LASIASSRGYKII 60
++++ E G GK V+VE SAN G IG LA I GY +
Sbjct: 94 AILEAGERYGRSDIGKGKKVVVEYVSANPTGPLHVGHLRSAVIGDALARILEFAGYDVT 152
>gnl|CDD|173938 cd08179, NADPH_BDH, NADPH-dependent butanol dehydrogenase involved
in the butanol and ethanol formation pathway in
bacteria. NADPH-dependent butanol dehydrogenase (BDH)
is involved in the butanol and ethanol formation pathway
of some bacteria. The fermentation process is
characterized by an acid producing growth phase,
followed by a solvent producing phase. The latter phase
is associated with the induction of solventogenic
enzymes such as butanol dehydrogenase. The activity of
the enzymes require NADPH as cofactor, as well as
divalent ions zinc or iron. This family is a member of
the iron-containing alcohol dehydrogenase superfamily.
Protein structure has a dehydroquinate synthase-like
fold.
Length = 375
Score = 29.2 bits (66), Expect = 1.4
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 8/58 (13%)
Query: 95 KDSGGKFDALVAG---IRTGGTITGAEKFLKEKNLEMKVY-GIE---SVESAVLNGGK 145
K GK +V G ++ G + E +LKE +E++V+ G+E SVE VL G +
Sbjct: 19 KTLKGKKAFIVTGGGSMKKFGFLDKVEAYLKEAGIEVEVFEGVEPDPSVE-TVLKGAE 75
>gnl|CDD|130197 TIGR01127, ilvA_1Cterm, threonine ammonia-lyase, medium form. A
form of threonine dehydratase with two copies of the
C-terminal domain pfam00585 is described by TIGR01124.
This model describes a phylogenetically distinct form
with a single copy of pfam00585. This form branches with
the catabolic threonine dehydratase of E. coli; many
members are designated as catabolic for this reason.
However, the catabolic form lacks any pfam00585 domain.
Many members of this model are found in species with
other Ile biosynthetic enzymes [Amino acid biosynthesis,
Pyruvate family].
Length = 380
Score = 28.9 bits (65), Expect = 1.4
Identities = 11/40 (27%), Positives = 20/40 (50%)
Query: 96 DSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIES 135
+ D ++ + GG I+G K+ N +KV G+E+
Sbjct: 144 EDIPDVDTVIVPVGGGGLISGVASAAKQINPNVKVIGVEA 183
>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 577
Score = 29.1 bits (66), Expect = 1.6
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 15/61 (24%)
Query: 16 SMIKDAEDKGSIS-PGKQYNVLVEITSAN------------AGIG--LASIASSRGYKII 60
+++ +D+ S GK V++E +SAN A IG LA I GY +
Sbjct: 99 EILEKGDDRYGRSKLGKGKKVVIEYSSANPTGPLHIGHLRNAIIGDSLARILEFLGYDVT 158
Query: 61 V 61
Sbjct: 159 R 159
>gnl|CDD|181856 PRK09436, thrA, bifunctional aspartokinase I/homoserine
dehydrogenase I; Provisional.
Length = 819
Score = 28.2 bits (64), Expect = 3.1
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 5/39 (12%)
Query: 100 KFDALVAGIRT-GGT----ITGAEKFLKEKNLEMKVYGI 133
D V G+ GG I + +LK+KN++++V GI
Sbjct: 465 VLDVFVIGVGGVGGALLEQIKRQQPWLKKKNIDLRVCGI 503
>gnl|CDD|233788 TIGR02224, recomb_XerC, tyrosine recombinase XerC. The phage
integrase family describes a number of recombinases
with tyrosine active sites that transiently bind
covalently to DNA. Many are associated with mobile DNA
elements, including phage, transposons, and phase
variation loci. This model represents XerC, one of two
closely related chromosomal proteins along with XerD
(TIGR02225). XerC and XerD are site-specific
recombinases which help resolve chromosome dimers to
monomers for cell division after DNA replication. In
species with a large chromosome and homologs of XerC on
other replicons, the chomosomal copy was preferred for
building this model. This model does not detect all
XerC, as some apparent XerC examples score in the gray
zone between trusted (450) and noise (410) cutoffs,
along with some XerD examples. XerC and XerD interact
with cell division protein FtsK [DNA metabolism, DNA
replication, recombination, and repair].
Length = 295
Score = 28.0 bits (63), Expect = 3.6
Identities = 8/26 (30%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 68 SIQRRMSKIPN--AYLLQQHENPANP 91
S+ R++S + + +LL++ ANP
Sbjct: 65 SLARKLSALRSFYRFLLRRGLIDANP 90
>gnl|CDD|193498 cd03876, M28_SGAP_like, M28 Zn-peptidase Streptomyces griseus
Aminopeptidase and similar proteins. Peptidase family
M28; Streptomyces griseus Aminopeptidase (SGAP, Leucine
aminopeptidase (LAP), aminopeptidase S, Mername-AA022
peptidase) subfamily. SGAP is a di-zinc exopeptidase
with high preference towards large hydrophobic
amino-terminal residues, with Leu being the most
efficiently cleaved. It can accommodate all except Pro
and Glu residues in the P1' position. It is a monomeric
(30 kDa), calcium-activated and calcium-stabilized
enzyme; its activation by calcium correlates with
substrate specificity and it has thermal stability only
in the presence of calcium. Although SGAP contains a
calcium binding site, it is not conserved in many
members of this subfamily. SGAP is present in the
extracellular fluid of S. griseus cultures.
Length = 288
Score = 27.6 bits (62), Expect = 4.1
Identities = 17/44 (38%), Positives = 20/44 (45%), Gaps = 13/44 (29%)
Query: 104 LVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVLNGGKPG 147
+ AGI GG TGAE GI++ E A L GG G
Sbjct: 216 IEAGIPAGGLFTGAE-------------GIKTAEQAALWGGTAG 246
>gnl|CDD|205018 pfam12683, DUF3798, Protein of unknown function (DUF3798). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 247 and 417 amino
acids in length. Most of the proteins in this family
have an N-terminal lipoprotein attachment site. These
proteins have distant similarity to periplasmic ligand
binding families such as pfam02608, which suggests that
this family have a similar role.
Length = 275
Score = 27.3 bits (61), Expect = 4.7
Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 13/96 (13%)
Query: 37 VEITSANAGIGLASIASSRGYKIIVKMPNT-------YSIQRRMSKIPNAYLLQQHENPA 89
E S A + L SRG I+ YS R +S + ++ ++
Sbjct: 100 PEEMSKVADLVLNPDEESRGKAIVEAAHEMGAKTFVHYSFPRHLSYETLS---RRRDDMK 156
Query: 90 NPKIWKDSGGKF-DALVAGIRTGGTITGAEKFLKEK 124
+ KD G +F + + ++GA++F+ E
Sbjct: 157 --EACKDLGLEFVEVTAPDPTSDAGVSGAQQFILED 190
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 27.5 bits (62), Expect = 4.8
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 96 DSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIE-----SVESAVLNGG 144
+ G D + + GG I+G +LKE++ + K+ G+E S+++A+ G
Sbjct: 175 EKEGSPDYVFVPVGGGGLISGVTTYLKERSPKTKIIGVEPAGAASMKAALEAGK 228
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 27.4 bits (62), Expect = 4.8
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 12/61 (19%)
Query: 81 LLQQHENPANPKIWKDSGGKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAV 140
+LQQH +P DA+ + GG I G ++K+ E+KV G+E +SA
Sbjct: 162 ILQQHPHP------------LDAVFVPVGGGGLIAGVAAYIKQLRPEIKVIGVEPEDSAC 209
Query: 141 L 141
L
Sbjct: 210 L 210
>gnl|CDD|233752 TIGR02153, gatD_arch, glutamyl-tRNA(Gln) amidotransferase, subunit
D. This peptide is found only in the Archaea. It is
part of a heterodimer, with GatE (TIGR00134), that acts
as an amidotransferase on misacylated Glu-tRNA(Gln) to
produce Gln-tRNA(Gln). The analogous amidotransferase
found in bacteria is the GatABC system, although GatABC
homologs in the Archaea appear to act instead on
Asp-tRNA(Asn) [Protein synthesis, tRNA aminoacylation].
Length = 404
Score = 27.3 bits (61), Expect = 4.9
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 8/81 (9%)
Query: 45 GIGLASIASSRGYKIIVKMPNTYSIQRRMSKIPNAYLLQQ-HENPANPKIWKDSGGKFDA 103
G+ + S S I++K+ N Y+I ++S+I N +L++ E P +
Sbjct: 4 GVVMPSYELSDDDIIVLKLKNGYNIGFKISEIRNIEVLEEGSEPREVPPPAEIEKKPGLP 63
Query: 104 LVAGIRTGGTI-------TGA 117
V+ I TGGTI TGA
Sbjct: 64 KVSIISTGGTIASRVDYETGA 84
>gnl|CDD|237111 PRK12483, PRK12483, threonine dehydratase; Reviewed.
Length = 521
Score = 27.5 bits (61), Expect = 5.0
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 99 GKFDALVAGIRTGGTITGAEKFLKEKNLEMKVYGIESVESAVL 141
G DA+ + GG I G ++K E+KV G+E +S L
Sbjct: 185 GPLDAIFVPVGGGGLIAGIAAYVKYVRPEIKVIGVEPDDSNCL 227
>gnl|CDD|179535 PRK03092, PRK03092, ribose-phosphate pyrophosphokinase;
Provisional.
Length = 304
Score = 26.8 bits (60), Expect = 7.9
Identities = 11/16 (68%), Positives = 12/16 (75%)
Query: 108 IRTGGTITGAEKFLKE 123
I TGGTI GA + LKE
Sbjct: 211 IDTGGTIAGAVRALKE 226
>gnl|CDD|172654 PRK14166, PRK14166, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 282
Score = 26.9 bits (59), Expect = 8.1
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 121 LKEKNLEMKVYGIESVESAVLNGGKPG 147
LKEKN +K GIES + +L G P
Sbjct: 17 LKEKNQFLKSKGIESCLAVILVGDNPA 43
>gnl|CDD|131747 TIGR02700, flavo_MJ0208, archaeoflavoprotein, MJ0208 family. This
model describes one of two paralogous families of
archaealflavoprotein. The other, described by TIGR02699
and typified by the partially characterized AF1518 of
Archaeoglobus fulgidus, is a homodimeric FMN-containing
flavoprotein that accepts electrons from ferredoxin and
can transfer them to various oxidoreductases. The
function of this protein family is unknown [Unknown
function, General].
Length = 234
Score = 26.4 bits (58), Expect = 9.3
Identities = 18/90 (20%), Positives = 40/90 (44%), Gaps = 9/90 (10%)
Query: 31 KQYNVLVEITSANAGIGLASIASSRGYKIIVKMPNTYSIQRRMSKIPNA----YLLQQHE 86
+ + V+ E+ + +++ S G ++ V+M Y + + +I + + E
Sbjct: 15 ESFQVMKELKREIEELRVSTFVSRAGEEV-VRM---YGLWDDLREISPGGYYEEVFTESE 70
Query: 87 NPAN-PKIWKDSGGKFDALVAGIRTGGTIT 115
A+ P I + + GK+D L+ T T+
Sbjct: 71 EGASSPIIGRFALGKYDLLIVSPATANTVA 100
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
0.316 0.136 0.384
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,831,872
Number of extensions: 915169
Number of successful extensions: 910
Number of sequences better than 10.0: 1
Number of HSP's gapped: 871
Number of HSP's successfully gapped: 60
Length of query: 194
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 102
Effective length of database: 6,857,034
Effective search space: 699417468
Effective search space used: 699417468
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 (21.6 bits)
S2: 56 (25.4 bits)