RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 033857
(110 letters)
>gnl|CDD|177651 PLN00011, PLN00011, cysteine synthase.
Length = 323
Score = 148 bits (376), Expect = 2e-45
Identities = 67/81 (82%), Positives = 72/81 (88%), Gaps = 5/81 (6%)
Query: 1 MEDKCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAE 60
MED+C IK DVTELIG+TPMVYLNN+VDGCVA IAAKLEMM+PCSSVKDRIAYSMIKDAE
Sbjct: 1 MEDRCLIKNDVTELIGNTPMVYLNNIVDGCVARIAAKLEMMEPCSSVKDRIAYSMIKDAE 60
Query: 61 DKGLITPGKCFCFQSTLITST 81
DKGLITPGK STLI +T
Sbjct: 61 DKGLITPGK-----STLIEAT 76
>gnl|CDD|166206 PLN02565, PLN02565, cysteine synthase.
Length = 322
Score = 136 bits (344), Expect = 1e-40
Identities = 58/79 (73%), Positives = 63/79 (79%), Gaps = 5/79 (6%)
Query: 3 DKCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDK 62
+K I KDVTELIG TP+VYLNNVVDGCVA IAAKLEMM+PCSSVKDRI YSMI DAE+K
Sbjct: 1 EKSSIAKDVTELIGKTPLVYLNNVVDGCVARIAAKLEMMEPCSSVKDRIGYSMITDAEEK 60
Query: 63 GLITPGKCFCFQSTLITST 81
GLI PG+ S LI T
Sbjct: 61 GLIKPGE-----SVLIEPT 74
>gnl|CDD|178171 PLN02556, PLN02556, cysteine synthase/L-3-cyanoalanine synthase.
Length = 368
Score = 105 bits (264), Expect = 1e-28
Identities = 46/76 (60%), Positives = 56/76 (73%), Gaps = 5/76 (6%)
Query: 6 EIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLI 65
+IK D ++LIG TP+VYLN V +GC A+IAAK EM QP SS+KDR A +MI+DAE K LI
Sbjct: 48 KIKTDASQLIGKTPLVYLNKVTEGCGAYIAAKQEMFQPTSSIKDRPALAMIEDAEKKNLI 107
Query: 66 TPGKCFCFQSTLITST 81
TPGK +TLI T
Sbjct: 108 TPGK-----TTLIEPT 118
>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 = 100 bits (251), Expect = 5e-27
Identities = 37/71 (52%), Positives = 47/71 (66%), Gaps = 6/71 (8%)
Query: 11 VTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKC 70
+ ELIG+TP+V LN + GC A + AKLE P SVKDRIA SMI+DAE +GL+ PG
Sbjct: 1 IEELIGNTPLVRLNRLAPGCDARVLAKLEGRNPSGSVKDRIALSMIEDAEKRGLLKPGD- 59
Query: 71 FCFQSTLITST 81
T+I +T
Sbjct: 60 -----TIIEAT 65
>gnl|CDD|178587 PLN03013, PLN03013, cysteine synthase.
Length = 429
Score = 101 bits (253), Expect = 8e-27
Identities = 45/74 (60%), Positives = 56/74 (75%)
Query: 3 DKCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDK 62
D I +V++LIG TPMVYLN++ GCVA+IAAKLE+M+PC SVKDRI YSM+ DAE K
Sbjct: 109 DGLNIADNVSQLIGKTPMVYLNSIAKGCVANIAAKLEIMEPCCSVKDRIGYSMVTDAEQK 168
Query: 63 GLITPGKCFCFQST 76
G I+PGK + T
Sbjct: 169 GFISPGKSVLVEPT 182
>gnl|CDD|223110 COG0031, CysK, Cysteine synthase [Amino acid transport and
metabolism].
Length = 300
Score = 95.7 bits (239), Expect = 3e-25
Identities = 34/75 (45%), Positives = 46/75 (61%), Gaps = 6/75 (8%)
Query: 7 IKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLIT 66
I + + +LIG+TP+V LN + G I AKLE P SVKDRIA MI+DAE +GL+
Sbjct: 1 IYESILDLIGNTPLVRLNRLSPGTGVEIYAKLESFNPGGSVKDRIALYMIEDAEKRGLLK 60
Query: 67 PGKCFCFQSTLITST 81
PG T++ +T
Sbjct: 61 PGG------TIVEAT 69
>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 = 95.1 bits (237), Expect = 4e-25
Identities = 33/59 (55%), Positives = 44/59 (74%), Gaps = 1/59 (1%)
Query: 11 VTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGK 69
++ELIG+TP+V LN + +GC A++ KLE P SVKDRIA +MI DAE +GL+ PGK
Sbjct: 1 ISELIGNTPLVRLNRI-EGCNANVFVKLEGRNPSGSVKDRIALNMIWDAEKRGLLKPGK 58
>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 = 89.1 bits (222), Expect = 8e-23
Identities = 33/66 (50%), Positives = 41/66 (62%), Gaps = 6/66 (9%)
Query: 16 GHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKCFCFQS 75
G+TP+V LN + G A I AKLE P SVKDRIA MI+DAE +GL+ PG +
Sbjct: 1 GNTPLVRLNRLSPGTGAEIYAKLEFFNPGGSVKDRIALYMIEDAEKRGLLKPG------T 54
Query: 76 TLITST 81
T+I T
Sbjct: 55 TIIEPT 60
>gnl|CDD|182672 PRK10717, PRK10717, cysteine synthase A; Provisional.
Length = 330
Score = 76.1 bits (188), Expect = 8e-18
Identities = 29/64 (45%), Positives = 41/64 (64%), Gaps = 4/64 (6%)
Query: 7 IKKDVTELIGHTPMVYLNNVVD--GCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGL 64
I +DV++ IG+TP++ LN + GC I K E + P SVKDR A ++I DAE +GL
Sbjct: 3 IFEDVSDTIGNTPLIRLNRASEATGC--EILGKAEFLNPGGSVKDRAALNIIWDAEKRGL 60
Query: 65 ITPG 68
+ PG
Sbjct: 61 LKPG 64
>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 = 73.7 bits (181), Expect = 1e-16
Identities = 33/75 (44%), Positives = 43/75 (57%), Gaps = 6/75 (8%)
Query: 7 IKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLIT 66
I+ ++ +LIG+TP+V LN V G + AK E P SVKDRIA MI+DAE G +
Sbjct: 1 IRDNIIDLIGNTPLVRLNKVSKGIKCELLAKCEFFNPGGSVKDRIALRMIEDAEASGRLK 60
Query: 67 PGKCFCFQSTLITST 81
PG T+I T
Sbjct: 61 PG------DTIIEPT 69
>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 = 71.8 bits (177), Expect = 3e-16
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 6/71 (8%)
Query: 11 VTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKC 70
+ LIG+TP+V L + + AKLE P S+KDR A +++ A +G ITPG
Sbjct: 1 ILSLIGNTPLVKLERLFPDAPFRLFAKLEGFNPGGSIKDRPALYILEAAIKRGRITPG-- 58
Query: 71 FCFQSTLITST 81
+T+I S+
Sbjct: 59 ----TTIIESS 65
>gnl|CDD|236972 PRK11761, cysM, cysteine synthase B; Provisional.
Length = 296
Score = 70.7 bits (174), Expect = 6e-16
Identities = 31/69 (44%), Positives = 37/69 (53%), Gaps = 6/69 (8%)
Query: 13 ELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKCFC 72
+ IG+TP+V L + I AKLE P SVKDR A SMI AE +G I PG
Sbjct: 8 DTIGNTPLVKLQRLPPDRGNTILAKLEGNNPAGSVKDRPALSMIVQAEKRGEIKPG---- 63
Query: 73 FQSTLITST 81
TLI +T
Sbjct: 64 --DTLIEAT 70
>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 = 59.5 bits (145), Expect = 5e-12
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 18 TPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKCFCFQSTL 77
TP+V L + A+I KLE + P S KDR A ++I AE++G + G +
Sbjct: 1 TPLVRLKRLSKLGGANIYLKLEFLNPTGSFKDRGALNLILLAEEEGKLPKG-------VI 53
Query: 78 ITST 81
I ST
Sbjct: 54 IEST 57
>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 = 57.2 bits (138), Expect = 4e-11
Identities = 27/71 (38%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 11 VTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKC 70
+ + +G+TP+V L + + + KLE P SVKDR A SMI +AE +G I PG
Sbjct: 2 IEQTVGNTPLVRLQRMGPENGSEVWLKLEGNNPAGSVKDRPALSMIVEAEKRGEIKPGD- 60
Query: 71 FCFQSTLITST 81
LI +T
Sbjct: 61 -----VLIEAT 66
>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 = 54.7 bits (132), Expect = 3e-10
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 11 VTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKG 63
++ IG TP+V L + A + KLE + P S KDR A ++ A ++G
Sbjct: 1 ISLGIGPTPLVRLPS--PLLGARVYLKLESLNPTGSFKDRGAAYLLLRALERG 51
>gnl|CDD|215204 PLN02356, PLN02356, phosphateglycerate kinase.
Length = 423
Score = 48.8 bits (116), Expect = 6e-08
Identities = 21/65 (32%), Positives = 39/65 (60%)
Query: 4 KCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKG 63
K + + + + IG+TP++ +N++ + I K E + P SVKDR+A +I++A + G
Sbjct: 40 KKKPRNGLIDAIGNTPLIRINSLSEATGCEILGKCEFLNPGGSVKDRVAVKIIEEALESG 99
Query: 64 LITPG 68
+ PG
Sbjct: 100 QLFPG 104
>gnl|CDD|235789 PRK06381, PRK06381, threonine synthase; Validated.
Length = 319
Score = 33.5 bits (77), Expect = 0.011
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 37 KLEMMQPCSSVKDRIAYSMIKDAEDKGL--ITPGKC 70
K E P + KDRIA + ++ A G IT G C
Sbjct: 36 KFEGANPTGTQKDRIAEAHVRRAMRLGYSGITVGTC 71
>gnl|CDD|224092 COG1171, IlvA, Threonine dehydratase [Amino acid transport and
metabolism].
Length = 347
Score = 33.3 bits (77), Expect = 0.014
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 17 HTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIK-----DAEDKGLIT 66
TP+ ++ + A I K E +QP S K R AY+ + + G+I
Sbjct: 25 PTPLQRSPSLSERLGAEIYLKRENLQPVGSFKIRGAYNKLSSLSEEEERAAGVIA 79
>gnl|CDD|107205 cd01562, Thr-dehyd, Threonine dehydratase: The first step in
amino acid degradation is the removal of nitrogen.
Although the nitrogen atoms of most amino acids are
transferred to alpha-ketoglutarate before removal, the
alpha-amino group of threonine can be directly
converted into NH4+. The direct deamination is
catalyzed by threonine dehydratase, in which pyridoxal
phosphate (PLP) is the prosthetic group. Threonine
dehydratase is widely distributed in all three major
phylogenetic divisions.
Length = 304
Score = 32.5 bits (75), Expect = 0.023
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 10/57 (17%)
Query: 17 HTPMVY---LNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMI----KDAEDKGLIT 66
TP++ L+ ++ A + K E +Q S K R AY+ + ++ KG++
Sbjct: 17 RTPLLTSPTLSELLG---AEVYLKCENLQKTGSFKIRGAYNKLLSLSEEERAKGVVA 70
>gnl|CDD|236317 PRK08638, PRK08638, threonine dehydratase; Validated.
Length = 333
Score = 30.5 bits (69), Expect = 0.13
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 1 MEDKCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAY---SMIK 57
++D E K+ + I TP+ N + + C I KLE MQ S K R A+ S +
Sbjct: 11 IDDIIEAKQRLAGRIRKTPLPRSNYLSERCKGEIFLKLENMQRTGSFKIRGAFNKLSSLT 70
Query: 58 DAE-DKGLIT 66
DAE KG++
Sbjct: 71 DAEKRKGVVA 80
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 30.0 bits (67), Expect = 0.20
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 10 DVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKG 63
DV+ + G+TP++ L N+ + K E P S KDR + A+++G
Sbjct: 21 DVSLMEGNTPLIPLLNISKQLGIQLYGKYEGANPTGSFKDRGMVMAVAKAKEEG 74
>gnl|CDD|233712 TIGR02079, THD1, threonine dehydratase. This model represents
threonine dehydratase, the first step in the pathway
converting threonine into isoleucine. At least two
other clades of biosynthetic threonine dehydratases
have been charcterized (TIGR01124 and TIGR01127). Those
sequences described by this model are exclusively found
in species containg the rest of the isoleucine pathway
and which are generally lacking in members of the those
other two clades of threonine dehydratases. Members of
this clade are also often gene clustered with other
elements of the isoleucine pathway [Amino acid
biosynthesis, Pyruvate family].
Length = 409
Score = 28.6 bits (64), Expect = 0.57
Identities = 20/63 (31%), Positives = 32/63 (50%)
Query: 2 EDKCEIKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAED 61
+D +K + E++ HTP+ + + A+I K E +QP S K R AY+ +K D
Sbjct: 1 QDIEAARKRLKEVVPHTPLQLNERLSEKYGANIYLKREDLQPVRSYKIRGAYNFLKQLSD 60
Query: 62 KGL 64
L
Sbjct: 61 AQL 63
>gnl|CDD|147125 pfam04811, Sec23_trunk, Sec23/Sec24 trunk domain. COPII-coated
vesicles carry proteins from the endoplasmic reticulum
to the Golgi complex. This vesicular transport can be
reconstituted by using three cytosolic components
containing five proteins: the small GTPase Sar1p, the
Sec23p/24p complex, and the Sec13p/Sec31p complex. This
domain is known as the trunk domain and has an
alpha/beta vWA fold and forms the dimer interface.
Length = 241
Score = 28.4 bits (64), Expect = 0.60
Identities = 18/83 (21%), Positives = 29/83 (34%), Gaps = 16/83 (19%)
Query: 7 IKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDR----------IAYSMI 56
+ D+ ++ P +L + + C + LE + V R A ++
Sbjct: 69 VVSDLQDMFLPLPDRFLVPLSE-CRFVLEDLLEELPRMFPVTKRPERCLGPALQAAVLLL 127
Query: 57 KDAEDKGLITPGKCFCFQSTLIT 79
K A T GK FQ L T
Sbjct: 128 KAAF-----TGGKIMLFQGGLPT 145
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 27.4 bits (61), Expect = 1.5
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 7 IKKDVTELIGHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGL 64
IK ++ G TP++ N+ KL+ + P S KDR + ++I +KG+
Sbjct: 48 IKHFISLGEGRTPLIKKGNI--------WFKLDFLNPTGSYKDRGSVTLISYLAEKGI 97
>gnl|CDD|180539 PRK06352, PRK06352, threonine synthase; Validated.
Length = 351
Score = 27.3 bits (60), Expect = 1.5
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 16 GHTPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKG 63
G+TP++ L N+ + K E + P S KDR + A+++G
Sbjct: 27 GNTPLIPLPNLSKELGVTLYGKYEGLNPTGSFKDRGMVMAVAKAKEEG 74
>gnl|CDD|235757 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 27.2 bits (61), Expect = 1.7
Identities = 15/44 (34%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 8 KKDVTELIGHTPMVYLNNVVDGC-VAHIAAKLEMMQPCSSVKDR 50
KK V+ G TP+ N+ V + K E P S KDR
Sbjct: 58 KKIVSLNEGGTPLYRCPNLEKELGVKELYVKHEGANPTGSFKDR 101
>gnl|CDD|241408 cd13254, PH2_ARAP, ArfGAP with RhoGAP domain, ankyrin repeat and
PH domain Pleckstrin homology (PH) domain, repeat 2.
ARAP proteins (also called centaurin delta) are
phosphatidylinositol 3,4,5-trisphosphate-dependent
GTPase-activating proteins that modulate actin
cytoskeleton remodeling by regulating ARF and RHO
family members. They bind phosphatidylinositol
3,4,5-trisphosphate (PtdIns(3,4,5)P3) and
phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4,5)P2)
binding. There are 3 mammalian ARAP proteins: ARAP1,
ARAP2, and ARAP3. All ARAP proteins contain a
N-terminal SAM (sterile alpha motif) domain, 5 PH
domains, an ArfGAP domain, 2 ankyrin domain, A RhoGap
domain, and a Ras-associating domain. This hierarchy
contains the second PH domain in ARAP. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They
share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 90
Score = 26.5 bits (59), Expect = 1.7
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 56 IKDAEDKG--LITPGKCFCF 73
+KD + + L TP + F F
Sbjct: 55 VKDVDKRSFDLTTPYRIFSF 74
>gnl|CDD|150547 pfam09887, DUF2114, Uncharacterized protein conserved in archaea
(DUF2114). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 448
Score = 27.3 bits (61), Expect = 1.9
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 47 VKDRIAYSMIKDAEDKGLITPGKCFCFQS-TLITSTKPILLLKILRVSCVFQDFCSNWVY 105
V +IA +I A+++GLITP IT KP L+L+ L ++ D N V+
Sbjct: 345 VSAKIAKRLIDVAKEEGLITPNTAIGITGRAGITGRKPELILEKLGELGLYDDPEDNVVF 404
Query: 106 T 106
Sbjct: 405 V 405
>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 = 27.0 bits (60), Expect = 2.0
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 18 TPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMI----KDAEDKGLIT 66
TP++Y + D + + KLE +Q S K R A + I +D +G++
Sbjct: 1 TPLIYSTTLSDITGSEVYLKLENLQKTGSFKIRGALNKIANLSEDQRQRGVVA 53
>gnl|CDD|236417 PRK09224, PRK09224, threonine dehydratase; Reviewed.
Length = 504
Score = 27.0 bits (61), Expect = 2.1
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 33 HIAAKLEMMQPCSSVKDRIAYSMI----KDAEDKGLIT 66
+ K E +QP S K R AY+ + ++ +G+IT
Sbjct: 36 QVLLKREDLQPVFSFKLRGAYNKMAQLTEEQLARGVIT 73
>gnl|CDD|178165 PLN02550, PLN02550, threonine dehydratase.
Length = 591
Score = 26.8 bits (59), Expect = 3.1
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 4/33 (12%)
Query: 37 KLEMMQPCSSVKDRIAYSMI----KDAEDKGLI 65
K E +QP S K R AY+M+ K+ DKG+I
Sbjct: 129 KREDLQPVFSFKLRGAYNMMAKLPKEQLDKGVI 161
>gnl|CDD|226594 COG4109, COG4109, Predicted transcriptional regulator containing
CBS domains [Transcription].
Length = 432
Score = 26.2 bits (58), Expect = 4.0
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 46 SVKDRIAYSMIKDAEDKGLIT 66
V + AY IK+AE+ GL++
Sbjct: 30 KVSEGTAYRAIKEAENLGLVS 50
>gnl|CDD|115513 pfam06861, BALF1, BALF1 protein. This family consists of several
BALF1 proteins which seem to be specific to the
Lymphocryptoviruses. BALF1, inhibits the antiapoptotic
activity of EBV BHRF1 and of KSBcl-2.
Length = 184
Score = 25.7 bits (56), Expect = 5.5
Identities = 16/55 (29%), Positives = 22/55 (40%)
Query: 18 TPMVYLNNVVDGCVAHIAAKLEMMQPCSSVKDRIAYSMIKDAEDKGLITPGKCFC 72
T V+ +N V+ VA + M S + R + D E KGL FC
Sbjct: 7 TDDVFQDNPVEAWVAPNLGADDEMAEGSLLLFRAMIAAFLDDEGKGLGLEAMLFC 61
>gnl|CDD|236244 PRK08329, PRK08329, threonine synthase; Validated.
Length = 347
Score = 25.6 bits (56), Expect = 6.5
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 37 KLEMMQPCSSVKDRIAYSMIKDAEDKGL 64
KL+ +QP S KDR Y + +++G+
Sbjct: 77 KLDYLQPTGSFKDRGTYVTVAKLKEEGI 104
>gnl|CDD|181584 PRK08931, PRK08931, 5'-methylthioadenosine phosphorylase;
Provisional.
Length = 289
Score = 25.0 bits (55), Expect = 9.7
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 5/26 (19%)
Query: 28 DGCVAHIAAKLEMMQP-CSSVKDRIA 52
GCVAH++ M P C + DR+A
Sbjct: 121 TGCVAHVS----MAHPVCPRLGDRLA 142
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
0.324 0.136 0.421
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,130,442
Number of extensions: 402039
Number of successful extensions: 411
Number of sequences better than 10.0: 1
Number of HSP's gapped: 408
Number of HSP's successfully gapped: 40
Length of query: 110
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 36
Effective length of database: 7,655,406
Effective search space: 275594616
Effective search space used: 275594616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.2 bits)