RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14323
(400 letters)
>gnl|CDD|223529 COG0452, Dfp, Phosphopantothenoylcysteine synthetase/decarboxylase
[Coenzyme metabolism].
Length = 392
Score = 60.8 bits (148), Expect = 3e-10
Identities = 51/270 (18%), Positives = 82/270 (30%), Gaps = 69/270 (25%)
Query: 140 MSGGTTVPMEHNTVRFVDNFSAGTRGASSVEYFVEQGYAVLFVYSTCVESAI-------- 191
++ T + V DN S T A+ + V+ + +
Sbjct: 85 VAPATANTIAKLAVGIADNLSTTTLLAAKAPLVLAPAMNVIMYTHPATQENLQRLKSEGV 144
Query: 192 ----------------HLAEYLWLLRTVCESLQDG---GNRVL----------------- 215
LAE ++ L+ G +VL
Sbjct: 145 LFIEPIEGELADVGDGRLAEPEEIVEAALALLKTPDLKGKKVLITAGPTREYIDPVRFIS 204
Query: 216 --------LYLAAAVADFYIPADQMVSTCVESAVHLAEYLWLLRTVCESLQDGGNRVLLY 267
LAAA T V L + ES ++ N VL
Sbjct: 205 NRSSGKMGFALAAAAKRRGAS-----VTLVSGPTSLKIPAGVEVVKVESAEEMLNAVLEA 259
Query: 268 --------LAAAVADFYIPADQMPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVV 319
AAAVAD Y P E K++ P + L P +L+ + + + +V
Sbjct: 260 ALPADIFISAAAVAD-YRPKWV-AEAKIKKQGEPFKLELVPNPDILASVARDYPKKNILV 317
Query: 320 SFKLETDPNILVKKARAALDKYHHKLVIGN 349
F ET +V+ AR L++ + L++ N
Sbjct: 318 GFAAETGD--IVEYAREKLERKNLDLIVAN 345
>gnl|CDD|217913 pfam04127, DFP, DNA / pantothenate metabolism flavoprotein. The
DNA/pantothenate metabolism flavoprotein (EC:4.1.1.36)
affects synthesis of DNA, and pantothenate metabolism.
Length = 184
Score = 55.1 bits (134), Expect = 5e-09
Identities = 28/81 (34%), Positives = 44/81 (54%), Gaps = 4/81 (4%)
Query: 269 AAAVADFYIPADQMPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVVSFKLETDPN 328
AAAVAD+ PA+ E K++ D + L P +L+ L + P F+V F ET+
Sbjct: 89 AAAVADYR-PAEVA-EGKIKKEDDELTLELVKNPDILAELGKLKKPGQFLVGFAAETEN- 145
Query: 329 ILVKKARAALDKYHHKLVIGN 349
L++ ARA L++ L++ N
Sbjct: 146 -LLENARAKLERKGLDLIVAN 165
>gnl|CDD|235513 PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine
decarboxylase/phosphopantothenate synthase; Validated.
Length = 399
Score = 54.4 bits (132), Expect = 4e-08
Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 4/83 (4%)
Query: 269 AAAVADFYIPADQMPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVVSFKLETDPN 328
AAAVAD Y PA E K++ G+G + L P +L+ + ++ R FVV F ET
Sbjct: 274 AAAVAD-YRPATVA-EGKIKKGEGELTLELVPNPDILAEVAALKDKRPFVVGFAAETGD- 330
Query: 329 ILVKKARAALDKYHHKLVIGNLL 351
+++ ARA L + L++ N +
Sbjct: 331 -VLEYARAKLKRKGLDLIVANDV 352
>gnl|CDD|131169 TIGR02114, coaB_strep, phosphopantothenate--cysteine ligase,
streptococcal. In most bacteria, a single bifunctional
protein catalyses phosphopantothenoylcysteine
decarboxylase and phosphopantothenate--cysteine ligase
activities, sequential steps in coenzyme A biosynthesis
(see TIGR00521). These activities reside in separate
proteins encoded by tandem genes in some bacterial
lineages. This model describes proteins from the genera
Streptococcus and Enterococcus homologous to the
C-terminal region of TIGR00521, corresponding to
phosphopantothenate--cysteine ligase activity
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pantothenate and coenzyme A].
Length = 227
Score = 52.1 bits (125), Expect = 1e-07
Identities = 63/257 (24%), Positives = 110/257 (42%), Gaps = 48/257 (18%)
Query: 141 SGGTTVPMEHNTVRFVDNFSAGTRGASSVEYFVEQGYAVLFVYS-TCVESAIHLAEYLWL 199
SGGT+ P++ +VR + N S G G E F+ G+ V V + ++ H +
Sbjct: 6 SGGTSEPID--SVRSITNHSTGHLGKIITETFLSAGHEVTLVTTKRALKPEPHPNLSIRE 63
Query: 200 LRTVCESLQDGGNRV----LLYLAAAVADFYIPADQMVSTCVESAVHLAEYLWLLRTVCE 255
+ T + L V +L + AV+D Y P V+++ +L E+L
Sbjct: 64 IETTKDLLITLKELVQEHDILIHSMAVSD-YTPVYMTDLEQVQASDNLNEFL-------- 114
Query: 256 SLQDGGNRVLLYLAAAVADFYIPADQMPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPR 315
+ Q E K+ S V+ L+ PK++S L W+P+
Sbjct: 115 -----------------------SKQNHEAKISSTSEYQVLFLKKTPKVIS-LVKEWNPQ 150
Query: 316 AFVVSFKLETD--PNILVKKARAALDKYHHKLVIGNLL---HTRKHQVILVSAEAEVPIT 370
+V FKL + LVK ARA+L K ++ N L +H+ +L+ + +V
Sbjct: 151 IHLVGFKLLVNVTQEELVKVARASLIKNQADFILANDLTDISADQHKALLIE-KNQVQTA 209
Query: 371 LSEEDKASGV--EIEKY 385
++E+ A + +++KY
Sbjct: 210 QTKEEIAELLYEKVQKY 226
Score = 29.8 bits (67), Expect = 2.2
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 4 NTVRFVDNFSAGTRGASSVEYFVEQGYAVLFVYRNNSIRP 43
++VR + N S G G E F+ G+ V V +++P
Sbjct: 14 DSVRSITNHSTGHLGKIITETFLSAGHEVTLVTTKRALKP 53
>gnl|CDD|181997 PRK09620, PRK09620, hypothetical protein; Provisional.
Length = 229
Score = 49.9 bits (119), Expect = 5e-07
Identities = 34/137 (24%), Positives = 63/137 (45%), Gaps = 14/137 (10%)
Query: 268 LAAAVADFYIPA--DQ----MPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVVSF 321
+AAA +D+ + DQ + + S D P+I Q PK+L + W P +V F
Sbjct: 93 MAAAGSDWVVDKICDQEGNVLDMNGKISSDIAPIIHFQKAPKVLKQIKQ-WDPETVLVGF 151
Query: 322 KLETDPN--ILVKKARAALDKYHHKLVIGN---LLHTRKHQVILVSAEAEVPITLSEEDK 376
KLE+D N L ++A+ +++ ++I N L++R ++ + + + +++
Sbjct: 152 KLESDVNEEELFERAKNRMEEAKASVMIANSPHSLYSRGAMHYVIGQDGKGQLCNGKDET 211
Query: 377 ASGVEIEKYLVQEVTRR 393
A EI K L
Sbjct: 212 AK--EIVKRLEVLCNHV 226
>gnl|CDD|233006 TIGR00521, coaBC_dfp, phosphopantothenoylcysteine decarboxylase /
phosphopantothenate--cysteine ligase. This model
represents a bifunctional enzyme that catalyzes the
second and third steps (cysteine ligation, EC 6.3.2.5,
and decarboxylation, EC 4.1.1.36) in the biosynthesis of
coenzyme A (CoA) from pantothenate in bacteria. In early
descriptions of this flavoprotein, a ts mutation in one
region of the protein appeared to cause a defect in DNA
metaobolism rather than an increased need for the
pantothenate precursor beta-alanine. This protein was
then called dfp, for DNA/pantothenate metabolism
flavoprotein. The authors responsible for detecting
phosphopantothenate--cysteine ligase activity suggest
renaming this bifunctional protein coaBC for its role in
CoA biosynthesis. This enzyme contains the FMN cofactor,
but no FAD or pyruvoyl group. The amino-terminal region
contains the phosphopantothenoylcysteine decarboxylase
activity [Biosynthesis of cofactors, prosthetic groups,
and carriers, Pantothenate and coenzyme A].
Length = 390
Score = 48.1 bits (115), Expect = 4e-06
Identities = 27/127 (21%), Positives = 59/127 (46%), Gaps = 14/127 (11%)
Query: 269 AAAVADFYIPADQMPEHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVVSFKLETDPN 328
AAAVADF + E K++ + L P +++ + + +V FK ET+ +
Sbjct: 272 AAAVADFKPK--TVFEGKIKKQGEELSLKLVKNPDIIAEVRKI-KKHQVIVGFKAETN-D 327
Query: 329 ILVKKARAALDKYHHKLVIGNLLH-----TRKHQVILVSAEAEVPITLSEEDKASGVEIE 383
L+K A+ L K + +++ N + + +++V + S + L + +E+
Sbjct: 328 DLIKYAKEKLKKKNLDMIVANDVSQRGFGSDENEVYIFSKHGHKELPLMSK-----LEVA 382
Query: 384 KYLVQEV 390
+ ++ E+
Sbjct: 383 ERILDEI 389
>gnl|CDD|235856 PRK06732, PRK06732, phosphopantothenate--cysteine ligase;
Validated.
Length = 229
Score = 38.0 bits (89), Expect = 0.005
Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 6/84 (7%)
Query: 284 EHKMQSGDGPPVISLQLVPKMLSPLTSVWSPRAFVVSFKLETD--PNILVKKARAALDKY 341
E K+ S V+ L+ PK++S W+P +V FKL + L+K ARA+L K
Sbjct: 121 EAKISSASDYQVLFLKKTPKVIS-YVKKWNPNITLVGFKLLVNVSKEELIKVARASLIKN 179
Query: 342 HHKLVIGNLL---HTRKHQVILVS 362
++ N L +H+ +LVS
Sbjct: 180 QADYILANDLTDISADQHKALLVS 203
Score = 30.7 bits (70), Expect = 0.89
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 141 SGGTTVPMEHNTVRFVDNFSAGTRGASSVEYFVEQGYAVLFV 182
SGGTT P++ +VR + N S G G E F+ G+ V V
Sbjct: 7 SGGTTEPID--SVRGITNHSTGQLGKIIAETFLAAGHEVTLV 46
>gnl|CDD|202405 pfam02807, ATP-gua_PtransN, ATP:guanido phosphotransferase,
N-terminal domain. The N-terminal domain has an
all-alpha fold.
Length = 76
Score = 29.8 bits (68), Expect = 0.40
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 49 SGATFLDCLQVSADNPD 65
G T DC+Q DNPD
Sbjct: 29 LGGTLDDCIQSGVDNPD 45
>gnl|CDD|188336 TIGR03535, DapD_actino,
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate
N-succinyltransferase. This enzyme is part of the
diaminopimelate pathway of lysine biosynthesis. This
model represents a clade of the enzyme specific to
Actinobacteria. Alternate name: tetrahydrodipicolinate
N-succinyltransferase.
Length = 319
Score = 32.0 bits (73), Expect = 0.47
Identities = 19/40 (47%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 140 MSGGTTVPMEHNTVRFVDNFSAGTRGASSVEYFVEQGYAV 179
++ GTTV E FV NF+AGT GAS VE + G V
Sbjct: 168 LAEGTTVMHEG----FV-NFNAGTLGASMVEGRISAGVVV 202
Score = 28.9 bits (65), Expect = 4.4
Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 8 FVDNFSAGTRGASSVEYFVEQGYAV 32
FV NF+AGT GAS VE + G V
Sbjct: 179 FV-NFNAGTLGASMVEGRISAGVVV 202
>gnl|CDD|165523 PHA03265, PHA03265, envelope glycoprotein D; Provisional.
Length = 402
Score = 30.0 bits (67), Expect = 2.4
Identities = 37/150 (24%), Positives = 54/150 (36%), Gaps = 16/150 (10%)
Query: 102 AEYLWL--LRTVCESLQDEGNRVLLYLAAAVADFYIPADQMSG-------GTTVPMEHNT 152
++ LW L T+ DE VL A + + Y ++ G T+P E
Sbjct: 151 SDILWQASLITMAAETDDELGLVLAAPAHSASGLYRRVIEIDGRRIYTDFSVTIPSERCP 210
Query: 153 VRFVDNFSAGTRGASSVEYFVEQGYAVLFVYSTCVESAIHLAEYLWLLRTVCESLQDGGN 212
+ F NF R + +Y + + F+ HL WL + DGGN
Sbjct: 211 IAFEQNFGNPDRCKTPEQYSRGEVFTRRFLGEFNFPQGEHLT---WLKFWF---VYDGGN 264
Query: 213 -RVLLYLAAAVADFYIPADQMVSTCVESAV 241
V Y A A A P + VES +
Sbjct: 265 LPVQFYEAQAFARPVPPDNHPGFDSVESEI 294
>gnl|CDD|217856 pfam04041, DUF377, Domain of unknown function (DUF377). This
family contains many hypothetical proteins, some of
which are predicted to be glycosyl hydrolases. This
family was noted to belong to the Beta fructosidase
superfamily in.
Length = 311
Score = 29.3 bits (66), Expect = 3.4
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 204 CESLQDGGNRVLLYLAAA---VADFYIPADQMVSTCVE 238
C +L DGGNRVL+Y AA V IP ++++ E
Sbjct: 274 CGALVDGGNRVLIYYGAADTAVGLAEIPLRELMNFLKE 311
>gnl|CDD|206744 cd11384, RagA_like, Rag GTPase, subfamily of Ras-related GTPases,
includes Ras-related GTP-binding proteins A and B. RagA
and RagB are closely related Rag GTPases (ras-related
GTP-binding protein A and B) that constitute a unique
subgroup of the Ras superfamily, and are functional
homologs of Saccharomyces cerevisiae Gtr1. These domains
function by forming heterodimers with RagC or RagD, and
similarly, Gtr1 dimerizes with Gtr2, through the
carboxy-terminal segments. They play an essential role
in regulating amino acid-induced target of rapamycin
complex 1 (TORC1) kinase signaling, exocytic cargo
sorting at endosomes, and epigenetic control of gene
expression. In response to amino acids, the Rag GTPases
guide the TORC1 complex to activate the platform
containing Rheb proto-oncogene by driving the
relocalization of mTORC1 from discrete locations in the
cytoplasm to a late endosomal and/or lysosomal
compartment that is Rheb-enriched and contains Rab-7.
Length = 286
Score = 29.1 bits (66), Expect = 3.5
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 134 YIPADQMSGGTTVPMEHNTVRFVDNF 159
Y+ D G T+ +EH+ VRF+ N
Sbjct: 23 YLARDTRRLGATIDVEHSHVRFLGNL 48
>gnl|CDD|100054 cd04649, LbH_THP_succinylT_putative, Putative
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP)
N-succinyltransferase (THP succinyltransferase),
C-terminal left-handed parallel alpha-helix (LbH)
domain: This group is composed of mostly uncharacterized
proteins containing an N-terminal domain of unknown
function and a C-terminal LbH domain with similarity to
THP succinyltransferase LbH. THP succinyltransferase
catalyzes the conversion of tetrahydrodipicolinate and
succinyl-CoA to N-succinyltetrahydrodipicolinate and
CoA. It is the committed step in the succinylase pathway
by which bacteria synthesize L-lysine and
meso-diaminopimelate, a component of peptidoglycan. The
enzyme is trimeric and displays the left-handed parallel
alpha-helix (LbH) structural motif encoded by the
hexapeptide repeat motif.
Length = 147
Score = 28.1 bits (63), Expect = 4.6
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 5/37 (13%)
Query: 143 GTTVPMEHNTVRFVDNFSAGTRGASSVEYFVEQGYAV 179
GTTV E FV NF+AGT G VE + G V
Sbjct: 19 GTTVMHEG----FV-NFNAGTLGNCMVEGRISSGVIV 50
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 0.135 0.398
Gapped
Lambda K H
0.267 0.0918 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,585,508
Number of extensions: 2008799
Number of successful extensions: 1748
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1742
Number of HSP's successfully gapped: 33
Length of query: 400
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 301
Effective length of database: 6,546,556
Effective search space: 1970513356
Effective search space used: 1970513356
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: 60 (26.6 bits)