RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 043034
(197 letters)
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 99.7 bits (248), Expect = 2e-25
Identities = 62/143 (43%), Positives = 73/143 (51%), Gaps = 46/143 (32%)
Query: 57 SEYVVLSHVVMGKHLIQA------------SCHEYCFQVSSEEAIETAQQLAHKEGLLVG 104
E VLS G HLIQ + + QV+ EEAIETA+ LA KEGLLVG
Sbjct: 210 VESAVLSGGQPGPHLIQGIGSGIIPFNLDLTIVDEIIQVTGEEAIETAKLLALKEGLLVG 269
Query: 105 ISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSFCINSLVNQSPCPFCSLHEACHQF 164
ISS AAAAA++KVAK PEN LIVV
Sbjct: 270 ISSGAAAAAALKVAKRPENAGKLIVV---------------------------------- 295
Query: 165 LLPSGGERYLSTELFDSITHEAE 187
+ PSGGERYLST+LF+S+ +EAE
Sbjct: 296 IFPSGGERYLSTKLFESVRYEAE 318
Score = 69.6 bits (170), Expect = 3e-14
Identities = 33/45 (73%), Positives = 34/45 (75%), Gaps = 5/45 (11%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MIKDAEDKGLITPGKS LIE T+ NTGIGLA I A RGYK
Sbjct: 55 MIKDAEDKGLITPGKSTLIEATAGNTGIGLAC-----IGAARGYK 94
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 92.7 bits (230), Expect = 9e-23
Identities = 52/107 (48%), Positives = 60/107 (56%), Gaps = 34/107 (31%)
Query: 82 QVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSF 141
QVSS+EAIETA+ LA KEGLLVGISS AAAAA+IK+AK PEN LIVV
Sbjct: 245 QVSSDEAIETAKLLALKEGLLVGISSGAAAAAAIKIAKRPENAGKLIVV----------- 293
Query: 142 CINSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELFDSITHEAET 188
+ PS GERYLS+ LF+S+ EAE
Sbjct: 294 -----------------------IFPSFGERYLSSVLFESVKKEAEN 317
Score = 68.0 bits (166), Expect = 9e-14
Identities = 30/45 (66%), Positives = 35/45 (77%), Gaps = 5/45 (11%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI DAE+KGLI PG+S+LIE TS NTGIGLAF +AA +GYK
Sbjct: 53 MITDAEEKGLIKPGESVLIEPTSGNTGIGLAF-----MAAAKGYK 92
>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 = 83.5 bits (207), Expect = 2e-19
Identities = 40/99 (40%), Positives = 50/99 (50%), Gaps = 34/99 (34%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFS 140
VS E+AIETA++LA +EG+LVGISS AA AA++K+AK EN +IV
Sbjct: 235 ITVSDEDAIETARRLAREEGILVGISSGAAVAAALKLAKRLENADKVIVA---------- 284
Query: 141 FCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELF 179
+LP GERYLST LF
Sbjct: 285 ------------------------ILPDTGERYLSTGLF 299
Score = 63.5 bits (155), Expect = 3e-12
Identities = 25/45 (55%), Positives = 31/45 (68%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI+DAE +GL+ PG +I IE TS NTGI LA +AA +GYK
Sbjct: 45 MIEDAEKRGLLKPGDTI-IEATSGNTGIALAM-----VAAAKGYK 83
>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 = 81.3 bits (201), Expect = 1e-18
Identities = 45/99 (45%), Positives = 54/99 (54%), Gaps = 35/99 (35%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFS 140
VS EEAIETA++LA +EG+LVGISS AA AA++K+AK PE D+ LIVV
Sbjct: 235 ITVSDEEAIETARRLAAEEGILVGISSGAAVAAALKLAKRPEPDK-LIVV---------- 283
Query: 141 FCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELF 179
+LPS GERYLST LF
Sbjct: 284 ------------------------ILPSTGERYLSTPLF 298
Score = 61.2 bits (149), Expect = 2e-11
Identities = 26/45 (57%), Positives = 31/45 (68%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI DAE +GL+ PGK+I +E TS NTGI LA +AA RGYK
Sbjct: 44 MIWDAEKRGLLKPGKTI-VEPTSGNTGIALAM-----VAAARGYK 82
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 73.5 bits (180), Expect = 1e-15
Identities = 41/110 (37%), Positives = 55/110 (50%), Gaps = 34/110 (30%)
Query: 78 EYCFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKL 137
E +VSSE+A+ A++LA KEGL+VGISS A A++++AK+PEN LIV
Sbjct: 285 EKVLEVSSEDAVNMARELALKEGLMVGISSGANTVAALRLAKMPENKGKLIVT------- 337
Query: 138 YFSFCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELFDSITHEAE 187
+ PS GERYLS+ LF + EAE
Sbjct: 338 ---------------------------VHPSFGERYLSSVLFQELRKEAE 360
Score = 62.7 bits (152), Expect = 7e-12
Identities = 28/45 (62%), Positives = 33/45 (73%), Gaps = 5/45 (11%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI+DAE K LITPGK+ LIE TS N GI LAF +AA++GYK
Sbjct: 97 MIEDAEKKNLITPGKTTLIEPTSGNMGISLAF-----MAAMKGYK 136
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 72.9 bits (178), Expect = 2e-15
Identities = 42/105 (40%), Positives = 51/105 (48%), Gaps = 35/105 (33%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSFC 142
+SSEEAIETA+QLA KEGL+VGISS AAAAA+IKVAK PEN LI V
Sbjct: 354 ISSEEAIETAKQLALKEGLMVGISSGAAAAAAIKVAKRPENAGKLIAV------------ 401
Query: 143 INSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELFDSITHEAE 187
L + G R + T S++ +
Sbjct: 402 ----------------------SLFASG-RDIYTPRCSSLSGKRW 423
Score = 59.0 bits (142), Expect = 1e-10
Identities = 29/45 (64%), Positives = 34/45 (75%), Gaps = 5/45 (11%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
M+ DAE KG I+PGKS+L+E TS NTGIGLAF IAA RGY+
Sbjct: 161 MVTDAEQKGFISPGKSVLVEPTSGNTGIGLAF-----IAASRGYR 200
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 66.8 bits (164), Expect = 2e-13
Identities = 36/96 (37%), Positives = 45/96 (46%), Gaps = 35/96 (36%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFS 140
+VS EEAI TA++LA +EGLLVGISS AA AA++K+AK + IV
Sbjct: 240 IRVSDEEAIATARRLAREEGLLVGISSGAALAAALKLAKELPAGK-TIVT---------- 288
Query: 141 FCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLST 176
+LP GERYLS
Sbjct: 289 ------------------------ILPDSGERYLSK 300
Score = 61.8 bits (151), Expect = 1e-11
Identities = 23/45 (51%), Positives = 31/45 (68%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI+DAE +GL+ PG +I +E TS NTGI LA +AA +GY+
Sbjct: 49 MIEDAEKRGLLKPGGTI-VEATSGNTGIALAM-----VAAAKGYR 87
>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 = 66.4 bits (163), Expect = 3e-13
Identities = 33/95 (34%), Positives = 42/95 (44%), Gaps = 35/95 (36%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFS 140
+VS EEA A++LA +EGLLVG SS AA AA++K+AK + IV
Sbjct: 232 VRVSDEEAFAMARRLAREEGLLVGGSSGAAVAAALKLAKRLGPGK-TIVT---------- 280
Query: 141 FCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLS 175
+LP GERYLS
Sbjct: 281 ------------------------ILPDSGERYLS 291
Score = 63.7 bits (156), Expect = 2e-12
Identities = 24/45 (53%), Positives = 32/45 (71%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI+DAE +GL+ PG + +IE TS NTGIGLA +AA +GY+
Sbjct: 40 MIEDAEKRGLLKPG-TTIIEPTSGNTGIGLAM-----VAAAKGYR 78
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 57.2 bits (139), Expect = 5e-10
Identities = 24/45 (53%), Positives = 28/45 (62%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI AE +G I PG LIE TS NTGI LA IAA++GY+
Sbjct: 50 MIVQAEKRGEIKPG-DTLIEATSGNTGIALAM-----IAAIKGYR 88
Score = 53.3 bits (129), Expect = 1e-08
Identities = 27/99 (27%), Positives = 46/99 (46%), Gaps = 36/99 (36%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSFC 142
VS +EA T ++LA +EG+ G+SS A AA++++A+ N ++V++I
Sbjct: 234 VSQQEAENTMRRLAREEGIFCGVSSGGAVAAALRIARENPNA---VIVAII--------- 281
Query: 143 INSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELFDS 181
C + G+RYLST +F +
Sbjct: 282 ------------------CDR------GDRYLSTGVFPA 296
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 56.4 bits (137), Expect = 9e-10
Identities = 24/45 (53%), Positives = 31/45 (68%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
+I DAE +GL+ PG +I +E T+ NTGIGLA +AA RGYK
Sbjct: 51 IIWDAEKRGLLKPGGTI-VEGTAGNTGIGLAL-----VAAARGYK 89
Score = 47.2 bits (113), Expect = 1e-06
Identities = 15/39 (38%), Positives = 26/39 (66%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK 119
++ EEA+ TA +L +EGL +G SS AA++++A+
Sbjct: 254 IRIPDEEALSTAYRLLEEEGLCLGGSSGINVAAALRLAR 292
>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 = 52.1 bits (125), Expect = 3e-08
Identities = 25/45 (55%), Positives = 31/45 (68%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI+DAE G + PG +I IE TS NTGIGLA +AA++GYK
Sbjct: 49 MIEDAEASGRLKPGDTI-IEPTSGNTGIGLAL-----VAAIKGYK 87
Score = 42.1 bits (99), Expect = 7e-05
Identities = 19/52 (36%), Positives = 32/52 (61%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSL 132
+ +E+ + A++L +EGLLVG SS +A A++K A+ + +IVV L
Sbjct: 247 IKTDDKESFKMARRLIKEEGLLVGGSSGSAVVAALKAAEDELTEDQVIVVLL 298
>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 = 51.6 bits (124), Expect = 4e-08
Identities = 32/122 (26%), Positives = 52/122 (42%), Gaps = 17/122 (13%)
Query: 26 TGIGLAFISAVRIAAVRGYKSYHCPT--RHLHHSEYVVLSHVVMG------------KHL 71
GI V G + P R L V + G L
Sbjct: 174 AGIARGLKELGPGIRVIGVEPEGAPALARSLEAGRRVPKPTTIAGLGPGIPLDGELALEL 233
Query: 72 IQASCHEYCFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK--IPENDRILIV 129
I + + VS EEA+E + LA +EG+LV SS AA AA++++A+ + + R+++V
Sbjct: 234 IDEYVGDV-YAVSDEEALEAIRLLARREGILVEPSSAAALAAALRLAELELGKGKRVVVV 292
Query: 130 VS 131
++
Sbjct: 293 LT 294
Score = 32.0 bits (73), Expect = 0.18
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 11/47 (23%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYKSY 47
++ A ++G + ++E +S NTG LA AA G K
Sbjct: 43 LLLRALERG------ATVVEASSGNTGRALAA-----AAARLGLKVT 78
>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 = 50.6 bits (122), Expect = 7e-08
Identities = 21/53 (39%), Positives = 36/53 (67%), Gaps = 1/53 (1%)
Query: 80 CFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVA-KIPENDRILIVVS 131
VS EEA+E + LA +EG+LV SS AA AA++K+A K+ + ++++++
Sbjct: 190 VVTVSDEEALEAIRLLAREEGILVEPSSAAALAAALKLAKKLGKGKTVVVILT 242
Score = 38.3 bits (90), Expect = 0.001
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
+I AE++G + K ++IE T NTGI LA AA G K
Sbjct: 38 LILLAEEEGKL--PKGVIIESTGGNTGIALAA-----AAARLGLK 75
>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 = 49.5 bits (118), Expect = 2e-07
Identities = 24/45 (53%), Positives = 30/45 (66%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
MI +AE +G I PG +LIE TS NTGI LA IAA++GY+
Sbjct: 46 MIVEAEKRGEIKPGD-VLIEATSGNTGIALAM-----IAALKGYR 84
Score = 45.3 bits (107), Expect = 6e-06
Identities = 22/97 (22%), Positives = 40/97 (41%), Gaps = 36/97 (37%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSFC 142
+ +A T ++LA +EG+ G+SS A AA++++A+ E ++V
Sbjct: 230 IHQRDAENTMRELAVREGIFCGVSSGGAVAAALRLAR--ELPDAVVVA------------ 275
Query: 143 INSLVNQSPCPFCSLHEACHQFLLPSGGERYLSTELF 179
++ G+RYLST +F
Sbjct: 276 ----------------------IICDRGDRYLSTGVF 290
>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 = 45.3 bits (108), Expect = 6e-06
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 6/45 (13%)
Query: 1 MIKDAEDKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRGYK 45
+++ A +G ITPG + +IE +S N GI LA I A +G +
Sbjct: 45 ILEAAIKRGRITPG-TTIIESSSGNLGIALAM-----ICAYKGLR 83
Score = 41.8 bits (99), Expect = 8e-05
Identities = 23/108 (21%), Positives = 37/108 (34%), Gaps = 37/108 (34%)
Query: 70 HLIQASCHEYCFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKV-AKIPENDRILI 128
L+ S + V + + ++LA +EG+L G SS AA ++ +IP ++
Sbjct: 226 ELLDESLIDDVVHVPEYDTVAGCRRLARREGILAGGSSGTVVAAIKRLLPRIPPGSTVV- 284
Query: 129 VVSLISYKLYFSFCINSLVNQSPCPFCSLHEACHQFLLPSGGERYLST 176
+LP GERYL T
Sbjct: 285 -----------------------------------AILPDRGERYLDT 297
>gnl|CDD|223572 COG0498, ThrC, Threonine synthase [Amino acid transport and
metabolism].
Length = 411
Score = 37.3 bits (87), Expect = 0.003
Identities = 17/50 (34%), Positives = 30/50 (60%), Gaps = 2/50 (4%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKV--AKIPENDRILIVV 130
VS EE +E + LA +EG+L+ S A AA +K+ I ++ +++V+
Sbjct: 319 VSDEEILEAIKLLAEREGILIEPHSAVAVAALLKLREKIIDPDETVVLVL 368
>gnl|CDD|107207 cd06446, Trp-synth_B, Tryptophan synthase-beta: Trptophan synthase
is a bifunctional enzyme that catalyses the last two
steps in the biosynthesis of L-tryptophan via its alpha
and beta reactions. In the alpha reaction, indole
3-glycerol phosphate is cleaved reversibly to
glyceraldehyde 3-phosphate and indole at the active site
of the alpha subunit. In the beta reaction, indole
undergoes a PLP-dependent reaction with L-serine to form
L-tryptophan at the active site of the beta subunit.
Members of this CD, Trp-synth_B, are found in all three
major phylogenetic divisions.
Length = 365
Score = 36.7 bits (86), Expect = 0.004
Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVA-KIPENDRILIVVS 131
V+ EEA+E + LA EG++ + S A A +IK+A K+ + I++ +S
Sbjct: 306 VTDEEALEAFKLLARTEGIIPALESSHAIAYAIKLAKKLGKEKVIVVNLS 355
>gnl|CDD|235539 PRK05638, PRK05638, threonine synthase; Validated.
Length = 442
Score = 35.9 bits (83), Expect = 0.008
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK---IPENDRILIVVS 131
V +EE I ++L KEG+ +SS A +K+ + I + D++++VV+
Sbjct: 301 VVNEEEIMAGEKLLAKEGIFAELSSAVVMPALLKLGEEGYIEKGDKVVLVVT 352
>gnl|CDD|223211 COG0133, TrpB, Tryptophan synthase beta chain [Amino acid transport
and metabolism].
Length = 396
Score = 36.0 bits (84), Expect = 0.008
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIV 129
++ EEA+E Q L+ EG++ + S A A ++K+A D I++V
Sbjct: 327 ITDEEALEAFQLLSRLEGIIPALESSHALAYALKLAPKLPKDEIIVV 373
>gnl|CDD|107206 cd01563, Thr-synth_1, Threonine synthase is a pyridoxal phosphate
(PLP) dependent enzyme that catalyses the last reaction
in the synthesis of threonine from aspartate. It
proceeds by converting O-phospho-L-homoserine (OPH) into
threonine and inorganic phosphate. In plants, OPH is an
intermediate between the methionine and
threonine/isoleucine pathways. Thus threonine synthase
competes for OPH with cystathionine-gamma-synthase, the
first enzyme in the methionine pathway. These enzymes
are in general dimers. Members of this CD, Thr-synth_1,
are widely distributed in bacteria, archaea and higher
plants.
Length = 324
Score = 33.0 bits (76), Expect = 0.070
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 3/55 (5%)
Query: 79 YCFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK---IPENDRILIVV 130
VS EE +E + LA EG+ V +S A+ A K+ + I + +R+++V+
Sbjct: 263 TAVAVSDEEILEAQKLLARTEGIFVEPASAASLAGLKKLREEGIIDKGERVVVVL 317
>gnl|CDD|232897 TIGR00263, trpB, tryptophan synthase, beta subunit. Tryptophan
synthase catalyzes the last step in the biosynthesis of
tryptophan. the beta chain contains the functional
domain for or the synthesis of tryptophan from indole
and serine. The enzyme requires pyridoxal-phosphate as a
cofactor. The pyridoxal-P attachment site is contained
within the conserved region
[LIVM]-x-H-x-G-[STA]-H-K-x-N] [K is the pyridoxal-P
attachment site] which is present between residues
90-100 of the model [Amino acid biosynthesis, Aromatic
amino acid family].
Length = 385
Score = 33.1 bits (76), Expect = 0.071
Identities = 14/47 (29%), Positives = 27/47 (57%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIV 129
++ +EA+E + L+ EG++ + S A A K+A D+I++V
Sbjct: 322 ITDDEALEAFKLLSRNEGIIPALESSHALAHLEKIAPTLPKDQIVVV 368
>gnl|CDD|235288 PRK04346, PRK04346, tryptophan synthase subunit beta; Validated.
Length = 397
Score = 32.3 bits (75), Expect = 0.14
Identities = 15/47 (31%), Positives = 29/47 (61%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIV 129
++ +EA+E Q L+ EG++ + S A A ++K+A D+I++V
Sbjct: 330 ITDDEALEAFQLLSRLEGIIPALESSHALAYALKLAPTLGKDQIIVV 376
>gnl|CDD|237513 PRK13803, PRK13803, bifunctional phosphoribosylanthranilate
isomerase/tryptophan synthase subunit beta; Provisional.
Length = 610
Score = 32.1 bits (73), Expect = 0.18
Identities = 14/50 (28%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSL 132
V+ EEA++ + LA EG++ + S + A A +K + + +++V+L
Sbjct: 542 VTDEEALDAFKLLAKLEGIIPALES-SHALAYLKEGRKKFKKKDIVIVNL 590
>gnl|CDD|183851 PRK13028, PRK13028, tryptophan synthase subunit beta; Provisional.
Length = 402
Score = 31.4 bits (72), Expect = 0.28
Identities = 15/50 (30%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK-IPENDRILIVVS 131
+ EEA++ L+ EG++ + S A A +IK+A + +++ IL+ +S
Sbjct: 334 ATDEEALDAFFLLSRTEGIIPALESSHAVAYAIKLAPELSKDETILVNLS 383
>gnl|CDD|178182 PLN02569, PLN02569, threonine synthase.
Length = 484
Score = 30.9 bits (70), Expect = 0.37
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 85 SEEAIETAQQLAHKEGLLVGISSDAAAAASIKV---AKIPENDRILIV 129
+EE + AQ A K G+ + + A AA K+ I DR ++V
Sbjct: 386 TEEELMDAQAEADKTGMFLCPHTGVALAALKKLRASGVIGPTDRTVVV 433
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 30.8 bits (70), Expect = 0.39
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 77 HEYCFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPE-NDRILIVVS 131
H Y F S +E ++ A+ L EGL +S +A AA +K K ND ++ V++
Sbjct: 260 HGYAFGFSDDEMVKYAELLRRMEGLNALPASASALAALVKYLKKNGVNDNVVAVIT 315
>gnl|CDD|232896 TIGR00260, thrC, threonine synthase. Involved in threonine
biosynthesis it catalyses the reaction
O-PHOSPHO-L-HOMOSERINE + H(2)O = L-THREONINE +
ORTHOPHOSPHATE using pyridoxal phosphate as a cofactor.
the enzyme is distantly related to the serine/threonine
dehydratases which are also pyridoxal-phosphate
dependent enzymes. the pyridoxal-phosphate binding site
is a Lys (K) residues present at residue 70 of the model
[Amino acid biosynthesis, Aspartate family].
Length = 328
Score = 30.4 bits (69), Expect = 0.57
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK---IPENDRILIVVSLISYKL 137
VS EE +E + LA +EG V S + AA +K+ + +R++ ++ K
Sbjct: 269 VSDEEILEAIKLLAREEGYFVEPHSAVSVAALLKLVEKGTADPAERVVCALTGNGLKD 326
>gnl|CDD|236013 PRK07409, PRK07409, threonine synthase; Validated.
Length = 353
Score = 30.2 bits (69), Expect = 0.61
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK---IPENDRILIVV 130
V+ EE +E + LA KEG+ +S A+ A +K + IPE ++ +
Sbjct: 267 VTDEEILEAYRLLARKEGVFCEPASAASVAGLLKAIRAGKIPEGSTVVCTL 317
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 30.1 bits (68), Expect = 0.76
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 80 CFQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILI 128
C VS E +E ++LA K+GLLV SS A A+ K K ND +L+
Sbjct: 285 CIVVSDNEIVEAWKELA-KKGLLVEYSS-ATVYAAYK--KYSVNDSVLV 329
>gnl|CDD|237887 PRK15046, PRK15046, 2-aminoethylphosphonate ABC transporter
substrate-binding protein; Provisional.
Length = 349
Score = 29.3 bits (66), Expect = 1.3
Identities = 16/58 (27%), Positives = 20/58 (34%), Gaps = 7/58 (12%)
Query: 94 QLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSLISYKLYFSFCINSLVNQSP 151
Q A EGLL SS A A + + V Y SF N V ++
Sbjct: 98 QQAAAEGLLQPYSSVNAKA--VPAIAKDADGTYAPFV-----NNYLSFIYNPKVLKTA 148
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 28.7 bits (65), Expect = 1.8
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVA---KIPENDRILIVV 130
VS EE ++ + LA KEG+ V +S A+ A IK+ I +++R++ +
Sbjct: 313 VSDEEILDAQKLLARKEGIGVEPASAASVAGLIKLVEEGVIDKDERVVCIT 363
>gnl|CDD|224323 COG1405, SUA7, Transcription initiation factor TFIIIB, Brf1
subunit/Transcription initiation factor TFIIB
[Transcription].
Length = 285
Score = 28.4 bits (64), Expect = 2.3
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 87 EAIETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRI 126
+AIE ++ A + GL G S AAA+I +A + +R
Sbjct: 214 KAIEIVKK-AKRAGLTAGKSPAGLAAAAIYLASLLLGERR 252
Score = 27.3 bits (61), Expect = 4.9
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 86 EEAIETAQQL---AHKEGLLVGISSDAAAAASIKVA 118
E ETA ++ A +GLL G S ++ AAA I A
Sbjct: 115 ESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAA 150
>gnl|CDD|216243 pfam01012, ETF, Electron transfer flavoprotein domain. This family
includes the homologous domain shared between the alpha
and beta subunits of the electron transfer flavoprotein.
Length = 160
Score = 27.5 bits (62), Expect = 3.7
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 84 SSEEAIETAQQLAHKEG-----LLVGISSDAAAAASIK 116
EA+E A++LA G ++VG AA A
Sbjct: 16 VDLEALEAARRLAEALGGEVTAVVVGPVEAAAEALLAA 53
>gnl|CDD|234294 TIGR03649, ergot_EASG, ergot alkaloid biosynthesis protein,
AFUA_2G17970 family. This family consists of fungal
proteins of unknown function associated with secondary
metabolite biosynthesis, such as of the ergot alkaloids
such as ergovaline. Nomenclature differs because gene
order differs - this is EasG in Neotyphodium lolii but
is designated ergot alkaloid biosynthetic protein A in
several other fungi.
Length = 285
Score = 27.7 bits (62), Expect = 3.7
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 6/41 (14%)
Query: 24 SNTGIG-LAFISAVRIAAVRGYKSYHCPT-RHLHHSEYVVL 62
S TG G + F+SA IA V +Y T + +++YVVL
Sbjct: 159 SATGDGKIPFVSADDIARV----AYRALTDKVAPNTDYVVL 195
>gnl|CDD|173921 cd02170, cytidylyltransferase, cytidylyltransferase. The
cytidylyltransferase family includes cholinephosphate
cytidylyltransferase (CCT), glycerol-3-phosphate
cytidylyltransferase, RafE and phosphoethanolamine
cytidylyltransferase (ECT). All enzymes catalyze the
transfer of a cytidylyl group from CTP to various
substrates.
Length = 136
Score = 26.9 bits (60), Expect = 4.2
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 89 IETAQQLAHKEGLLVGISSDAAAAASIKVAKIPENDRILIVVSL 132
+E A++L L+VG++ D A + +PE R +V +L
Sbjct: 21 LEEAKKLGDY--LIVGVARDETVAKIKRRPILPEEQRAEVVEAL 62
>gnl|CDD|176229 cd08268, MDR2, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P)-binding Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 328
Score = 27.6 bits (62), Expect = 4.4
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 5/37 (13%)
Query: 7 DKGLITPGKSILIEITSSNTGIGLAFISAVRIAAVRG 43
+ + PG S+LI SS +GLA A++IA G
Sbjct: 138 ELAGLRPGDSVLITAASS--SVGLA---AIQIANAAG 169
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 27.6 bits (61), Expect = 5.0
Identities = 13/39 (33%), Positives = 24/39 (61%)
Query: 81 FQVSSEEAIETAQQLAHKEGLLVGISSDAAAAASIKVAK 119
F+ + +EA+E ++ L +GL VG SS +++VA+
Sbjct: 339 FRGTDKEAVEMSRYLLKNDGLFVGSSSAMNCVGAVRVAQ 377
>gnl|CDD|215501 PLN02928, PLN02928, oxidoreductase family protein.
Length = 347
Score = 27.3 bits (61), Expect = 5.0
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 102 LVGISSDAAAAASIKVAKIP 121
L G+ DAA IKVA+IP
Sbjct: 93 LEGVDVDAATKHGIKVARIP 112
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 27.6 bits (62), Expect = 5.2
Identities = 7/51 (13%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 83 VSSEEAIETAQQLAHKEGLLVGISSDAAAAASIK--VAKIPENDRILIVVS 131
V +E + L + ++ + A A A++ + + +++++S
Sbjct: 262 VDEDEICAAMRDLFERTKIIAEPAG-ALALAALLAGKIEPLQGKTVVVILS 311
>gnl|CDD|214890 smart00893, ETF, Electron transfer flavoprotein domain. Electron
transfer flavoproteins (ETFs) serve as specific electron
acceptors for primary dehydrogenases, transferring the
electrons to terminal respiratory systems. They can be
functionally classified into constitutive,
"housekeeping" ETFs, mainly involved in the oxidation of
fatty acids (Group I), and ETFs produced by some
prokaryotes under specific growth conditions, receiving
electrons only from the oxidation of specific substrates
(Group II). ETFs are heterodimeric proteins composed of
an alpha and beta subunit, and contain an FAD cofactor
and AMP. ETF consists of three domains: domains I and II
are formed by the N- and C-terminal portions of the
alpha subunit, respectively, while domain III is formed
by the beta subunit. Domains I and III share an almost
identical alpha-beta-alpha sandwich fold, while domain
II forms an alpha-beta-alpha sandwich similar to that of
bacterial flavodoxins. FAD is bound in a cleft between
domains II and III, while domain III binds the AMP
molecule. Interactions between domains I and III
stabilise the protein, forming a shallow bowl where
domain II resides. This entry represents the N-terminal
domain of both the alpha and beta subunits from Group I
and Group II ETFs.
Length = 185
Score = 26.8 bits (60), Expect = 5.6
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 85 SEEAIETAQQLAHK---EGLLVGISSDAAAAASIKVAKIPENDRILIV 129
EA+E A++L K ++VG AA +++ A D++ +V
Sbjct: 13 DLEALEAARRLKEKGEVTAVVVG---PPAAEEALREALAMGADKVYLV 57
>gnl|CDD|109440 pfam00382, TFIIB, Transcription factor TFIIB repeat.
Length = 71
Score = 24.9 bits (55), Expect = 9.2
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 86 EEAIETAQQLAHKEGLLVGISSDAAAAASIKVA 118
+ A E A+ LA + LL G S ++ AAA + +A
Sbjct: 16 DAANELAK-LALDDNLLKGRSPESIAAACLYIA 47
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
0.322 0.134 0.393
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,544,439
Number of extensions: 851619
Number of successful extensions: 1059
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1046
Number of HSP's successfully gapped: 78
Length of query: 197
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 105
Effective length of database: 6,857,034
Effective search space: 719988570
Effective search space used: 719988570
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 (21.9 bits)
S2: 56 (25.3 bits)