RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5683
(264 letters)
>gnl|CDD|223257 COG0179, MhpD, 2-keto-4-pentenoate
hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase
(catechol pathway) [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 266
Score = 232 bits (595), Expect = 1e-76
Identities = 84/198 (42%), Positives = 125/198 (63%), Gaps = 13/198 (6%)
Query: 68 VKLSEVELLPPITRPDKILCIALNYKDHCDEQNKT--YPETPFFFNKFPSTIVGPFSEVT 125
+L+EV LL P+ P KI+C+ NY DH +E K PE P FF K P+ ++GP +
Sbjct: 45 GELAEVRLLAPLPPPGKIVCVGRNYADHAEEMGKDRDIPEEPVFFLKPPTAVIGPNDPIP 104
Query: 126 CPTNVTRYLDWEVELAVIIGKKTRDVKPHEAMESVF---------ESDWQKSSRNGGQWL 176
P ++ LD+E ELAV+IGK+ +DV +A++ + D Q + G W
Sbjct: 105 LPPG-SKGLDYEGELAVVIGKRGKDVSVEDALDYIAGYTIGNDVTARDLQMEEK-GRPWT 162
Query: 177 FAKSLDTFCPLGPSVVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEM 236
AK DTF P+GP +V K+ ++DP ++ L+ +VNG+V+Q ++S+M+ IPE+++YLS
Sbjct: 163 RAKGFDTFAPVGPWIVTKDEISDPQNLPLSLRVNGEVRQRGNTSDMIFSIPELIAYLSRF 222
Query: 237 ITLLPGDVILTGTPAGVG 254
+TL PGDVILTGTP+GVG
Sbjct: 223 MTLEPGDVILTGTPSGVG 240
>gnl|CDD|216570 pfam01557, FAA_hydrolase, Fumarylacetoacetate (FAA) hydrolase
family. This family consists of fumarylacetoacetate
(FAA) hydrolase, or fumarylacetoacetate hydrolase (FAH)
and it also includes HHDD isomerase/OPET decarboxylase
from E. coli strain W. FAA is the last enzyme in the
tyrosine catabolic pathway, it hydrolyses
fumarylacetoacetate into fumarate and acetoacetate which
then join the citric acid cycle. Mutations in FAA cause
type I tyrosinemia in humans this is an inherited
disorder mainly affecting the liver leading to liver
cirrhosis, hepatocellular carcinoma, renal tubular
damages and neurologic crises amongst other symptoms.
The enzymatic defect causes the toxic accumulation of
phenylalanine/tyrosine catabolites. The E. coli W enzyme
HHDD isomerase/OPET decarboxylase contains two copies of
this domain and functions in fourth and fifth steps of
the homoprotocatechuate pathway; here it decarboxylates
OPET to HHDD and isomerises this to OHED. The final
products of this pathway are pyruvic acid and succinic
semialdehyde. This family also includes various
hydratases and 4-oxalocrotonate decarboxylases which are
involved in the bacterial meta-cleavage pathways for
degradation of aromatic compounds. 2-hydroxypentadienoic
acid hydratase, encoded by mhpD in E. coli, is involved
in the phenylpropionic acid pathway of E. coli and
catalyzes the conversion of 2-hydroxy pentadienoate to
4-hydroxy-2-keto-pentanoate and uses a Mn2+ co-factor.
OHED hydratase encoded by hpcG in E. coli is involved in
the homoprotocatechuic acid (HPC) catabolism. XylI in P.
putida is a 4-Oxalocrotonate decarboxylase.
Length = 207
Score = 187 bits (477), Expect = 1e-59
Identities = 73/184 (39%), Positives = 101/184 (54%), Gaps = 16/184 (8%)
Query: 84 KILCIALNYKDHCDEQNKTYPE----TPFFFNKFPSTIVGPFSEVTCPTNVTRYLDWEVE 139
KI+ + LNY H E P FF K PS +VGP + P + LD+E E
Sbjct: 1 KIIGVGLNYTSHAKELGSGVEPPDYGPPVFFLKPPSALVGPGDPIVLPR-GSERLDYEAE 59
Query: 140 LAVIIGKKTRDVKPHEAMESVFE---------SDWQKSSRNGGQWLFAKSLDTFCPLGPS 190
LAV+IGK R V P EA++ V D Q R+ W AKS D F PLGP
Sbjct: 60 LAVVIGKDLRAVTPEEALDYVAGYTLANDVSARDLQD--RDYRPWFRAKSFDGFAPLGPW 117
Query: 191 VVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGDVILTGTP 250
+V + L DP D+ L +VNG++ Q+ S+++M+ E++++LS +TL PGD+ILTGTP
Sbjct: 118 IVTPDELGDPADLELRLRVNGELVQDGSTADMIFSPAELIAHLSRFLTLEPGDIILTGTP 177
Query: 251 AGVG 254
+G
Sbjct: 178 SGRA 181
>gnl|CDD|131356 TIGR02303, HpaG-C-term, 4-hydroxyphenylacetate degradation
bifunctional isomerase/decarboxylase, C-terminal
subunit. This model represents one of two
subunits/domains of the bifunctional
isomerase/decarboxylase involved in
4-hydroxyphenylacetate degradation. In E. coli and some
other species this enzyme is encoded by a single
polypeptide containing both this domain and the closely
related N-terminal domain (TIGR02305). In other species
such as Pasteurella multocida these domains are found as
two separate proteins (usually as tandem genes).
Together, these domains carry out the decarboxylation of
5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to
2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent
isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Length = 245
Score = 149 bits (379), Expect = 2e-44
Identities = 77/230 (33%), Positives = 117/230 (50%), Gaps = 31/230 (13%)
Query: 39 MPNNLVQFLEGGPE-LLEKAKRMVSECKCMVKLSEVELLPPITRPDKILCIALNYKDHCD 97
+ V + LL + R + +V LPP P I + LNY DH
Sbjct: 6 LYKGRVHSVVYREGGLLTEDGRALPP-------EQVTWLPPFE-PGTIFALGLNYADHAS 57
Query: 98 EQNKTYPETPFFFNKFPSTIVGPFSEVTCPTNVTRYLDWEVELAVIIGKKTRDVKPHEAM 157
E + PE P F K +T+ G P +V R++ +E ELAV++GK ++VK +AM
Sbjct: 58 ELGFSPPEEPLVFLKGNNTLTGHKGVTYRPKDV-RFMHYECELAVVVGKTAKNVKREDAM 116
Query: 158 ESV--------------FESDWQKSSRNGGQWLFAKSLDTFCPLGPSVVMKEYLNDPHDV 203
+ V E+ ++ + R K+ DTF P+GP +V KE + DP ++
Sbjct: 117 DYVLGYTIANDYAIRDYLENYYRPNLR-------VKNRDTFTPIGPWIVDKEDVEDPMNL 169
Query: 204 TLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGDVILTGTPAGV 253
L VNG++ Q ++S+M+ + E++ YLSE +TL PGDVILTGTP G+
Sbjct: 170 WLRTYVNGELTQEGNTSDMIFSVAELIEYLSEFMTLEPGDVILTGTPKGL 219
>gnl|CDD|185125 PRK15203, PRK15203, 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; Provisional.
Length = 429
Score = 122 bits (308), Expect = 2e-32
Identities = 63/183 (34%), Positives = 100/183 (54%), Gaps = 22/183 (12%)
Query: 85 ILCIALNYKDHCDEQNKTYPETPFFFNKFPSTIVGPFSEVTCPTNVTRYLDWEVELAVII 144
+ + LNY DH E PE P F K P+T+ G P N+ Y+ +E EL V+I
Sbjct: 225 LFALGLNYADHASELEFKPPEEPLVFLKAPNTLTGDNQTSVRPNNI-EYMHYEAELVVVI 283
Query: 145 GKKTRDVKPHEAMESV--------------FESDWQKSSRNGGQWLFAKSLDTFCPLGPS 190
GK+ R V +AM+ V E+ ++ + R KS D P+ +
Sbjct: 284 GKQARKVSEADAMDYVAGYTVCNDYAIRDYLENYYRPNLR-------VKSRDGLTPILST 336
Query: 191 VVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGDVILTGTP 250
+V KE + DPH++TL VNG+++Q ++++++ +P +++YLSE +TL PGD+I TGTP
Sbjct: 337 IVPKEAIPDPHNLTLRTFVNGELRQQGTTADLIFSVPFLIAYLSEFMTLNPGDMIATGTP 396
Query: 251 AGV 253
G+
Sbjct: 397 KGL 399
Score = 57.8 bits (139), Expect = 1e-09
Identities = 47/185 (25%), Positives = 86/185 (46%), Gaps = 31/185 (16%)
Query: 85 ILCIALNYKDHCDEQNKTY--------PETPFFFNKFPSTIVGPFSEVTCPTNVTRYLDW 136
I +ALN++ D + + P+T +F K +T++ + P
Sbjct: 5 IFAVALNHRSQLDAWQEAFQQSPYKAPPKTAVWFIKPRNTVIRCGEPIPFPQGEKVLSGA 64
Query: 137 EVELAVIIGKKTRDVKPHEAME-----------SVFESDWQKSSRNGGQWLFAKSLDTFC 185
V A+I+GK V+ +A E S+ E + + + + AK D FC
Sbjct: 65 TV--ALIVGKTATKVREEDAAEYIAGYALANDVSLPEESFYRPA------IKAKCRDGFC 116
Query: 186 PLGPSVVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGDVI 245
P+G +V L++ ++T+ ++NG+ + +++++ +++S LSE TL PGD I
Sbjct: 117 PIGETVA----LSNVDNLTIYTEINGRPADHWNTADLQRNAAQLLSALSEFATLNPGDAI 172
Query: 246 LTGTP 250
L GTP
Sbjct: 173 LLGTP 177
>gnl|CDD|182650 PRK10691, PRK10691, hypothetical protein; Provisional.
Length = 219
Score = 112 bits (281), Expect = 3e-30
Identities = 61/182 (33%), Positives = 92/182 (50%), Gaps = 13/182 (7%)
Query: 84 KILCIALNYKDHCDEQNKTYPETPFFFNKFPSTIVGPFSE-VTCPTNVTRYLDWEVELAV 142
K++C+ NY H E PE P F K P T + + + P + + EVELAV
Sbjct: 18 KVVCVGSNYAKHIKEMGSATPEEPVLFIK-PETALCDLRQPLAIPKDFGS-VHHEVELAV 75
Query: 143 IIGKKTRDVKPHEAMESVFE---------SDWQKSSRNGGQ-WLFAKSLDTFCPLGPSVV 192
+IG R +++ D Q + GQ W AK+ D CP+ +
Sbjct: 76 LIGATLRQATEEHVRKAIAGYGVALDLTLRDLQGKMKKAGQPWEKAKAFDNSCPISGFIP 135
Query: 193 MKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGDVILTGTPAG 252
+ E+ DP + TL VNG+V+Q ++++M+H I +++Y+S TL GDV+LTGTP G
Sbjct: 136 VAEFTGDPQNTTLGLSVNGEVRQQGNTADMIHPIVPLIAYMSRFFTLRAGDVVLTGTPEG 195
Query: 253 VG 254
VG
Sbjct: 196 VG 197
>gnl|CDD|237193 PRK12764, PRK12764, hypothetical protein; Provisional.
Length = 500
Score = 109 bits (274), Expect = 2e-27
Identities = 59/196 (30%), Positives = 102/196 (52%), Gaps = 16/196 (8%)
Query: 72 EVELLPPITRPDKILCIALNYKDHCDEQNKTYPETPFFFNKFPSTIVGPFSEVTCPTNVT 131
+ + P + RP K++ + LNY ++ +T P P +F K S++ V P T
Sbjct: 11 AIVVAPLLARPGKVIAVHLNYPSRAAQRGRT-PAQPSYFLKPSSSLALSGGTVERPAG-T 68
Query: 132 RYLDWEVELAVIIGKKTRDVKPHEAMESVFESDWQKSSRNGGQW----------LFAKSL 181
L +E E+A++IG+ R V P +A V ++ + G + L +K
Sbjct: 69 ELLAFEGEIALVIGRPARRVSPEDAWSHV---AAVTAANDLGVYDLRYADKGSNLRSKGG 125
Query: 182 DTFCPLGPSVVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLP 241
D F P+GP+++ + DP + + VNG++ Q+ ++ ++L ++V+ LS+++TL
Sbjct: 126 DGFTPIGPALISARGV-DPAQLRVRTWVNGELVQDDTTEDLLFPFAQLVADLSQLLTLEE 184
Query: 242 GDVILTGTPAGVGVFR 257
GDVILTGTPAG V
Sbjct: 185 GDVILTGTPAGSSVAA 200
>gnl|CDD|131358 TIGR02305, HpaG-N-term, 4-hydroxyphenylacetate degradation
bifunctional isomerase/decarboxylase, N-terminal
subunit. This model represents one of two
subunits/domains of the bifunctional
isomerase/decarboxylase involved in
4-hydroxyphenylacetate degradation. In E. coli and some
other species this enzyme is encoded by a single
polypeptide containing both this domain and the closely
related C-terminal domain (TIGR02303). In other species
such as Pasteurella multocida these domains are found as
two separate proteins (usually as tandem genes).
Together, these domains carry out the decarboxylation of
5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to
2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent
isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Length = 205
Score = 100 bits (252), Expect = 4e-26
Identities = 54/187 (28%), Positives = 92/187 (49%), Gaps = 29/187 (15%)
Query: 84 KILCIALNYK---DHCDEQ-----NKTYPETPFFFNKFPSTIVGPFSEVTCPTNVTRYLD 135
+ +ALNY+ D E K P+TP + K +T G + P V + L
Sbjct: 2 TVFGVALNYREQLDRLQEAFQQAPYKAPPKTPVLYIKPRNTHNGCGQPIPLPAGVEK-LR 60
Query: 136 WEVELAVIIGKKTRDVKPHEAMESVF------------ESDWQKSSRNGGQWLFAKSLDT 183
LA+++G+ V+ EA++ V +S ++ + + AK D
Sbjct: 61 SGATLALVVGRTACRVREEEALDYVAGYALVNDVSLPEDSYYRPAIK-------AKCRDG 113
Query: 184 FCPLGPSVVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLHKIPEIVSYLSEMITLLPGD 243
FCP+GP V + +P ++T+ +NG+ Q+ ++SN++ +++S LSE +TL PGD
Sbjct: 114 FCPIGPEV-PLSAIGNPDELTIYTYINGKPAQSNNTSNLVRSAAQLISELSEFMTLNPGD 172
Query: 244 VILTGTP 250
V+L GTP
Sbjct: 173 VLLLGTP 179
>gnl|CDD|241366 cd13212, PH-GRAM_MTMR10-like, Pleckstrin
Homology-Glucosyltransferases, Rab-like GTPase
activators and Myotubularins (PH-GRAM) domain. MTMR10,
MTMR11, and MTMR12 are catalytically inactive
phosphatases that play a role as an adapter for the
phosphatase myotubularin to regulate
myotubularintracellular location. They contains a Glu
residue instead of a conserved Cys residue in the
dsPTPase catalytic loop which renders it catalytically
inactive as a phosphatase. They contains an N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, an inactive PTP domain, a SET interaction
domain, and a C-terminal coiled-coil domain.
Myotubularin-related proteins are a subfamily of protein
tyrosine phosphatases (PTPs) that dephosphorylate
D3-phosphorylated inositol lipids. Mutations in this
family cause the human neuromuscular disorders
myotubular myopathy and type 4B Charcot-Marie-Tooth
syndrome. 6 of the 13 MTMRs (MTMRs 5, 9-13) contain
naturally occurring substitutions of residues required
for catalysis by PTP family enzymes. Although these
proteins are predicted to be enzymatically inactive,
they are thought to function as antagonists of
endogenous phosphatase activity or interaction modules.
Most MTMRs contain a N-terminal PH-GRAM domain, a
Rac-induced recruitment domain (RID) domain, a PTP
domain (which may be active or inactive), a
SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is part
of a larger motif with a pleckstrin homology (PH) domain
fold.
Length = 110
Score = 30.1 bits (68), Expect = 0.37
Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 183 TFCPLGPSVVMKEYLNDPHDVTLTC-----KVNGQVK-QNASSSNMLHKIPE 228
TF P G + K L+ +D L V+G + Q + L IPE
Sbjct: 26 TFQPDGWQRLQKNPLSSEYDFALHNIGRLEAVSGLKRVQLLRPGSQLKFIPE 77
>gnl|CDD|215443 PLN02829, PLN02829, Probable galacturonosyltransferase.
Length = 639
Score = 31.4 bits (71), Expect = 0.54
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 33 SSVDSSMPNNLVQFLEGGPELLEKAKRMVSECKCMVK 69
+S DS +P N + L+ + L K K+M +C +VK
Sbjct: 228 ASKDSDLPKNANEKLKAMEQTLAKGKQMQDDCSIVVK 264
>gnl|CDD|215632 PLN03207, PLN03207, stomagen; Provisional.
Length = 113
Score = 29.1 bits (65), Expect = 0.94
Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 21 VQLERNGEIINLSSVDSSMPNNLVQFLEGGPELLEKAKRMV 61
+Q RN I+ S V+ L GG L + ++R++
Sbjct: 29 IQGSRNQSILPYDQSISYPHQETVKLLNGG-HLSKSSRRLM 68
>gnl|CDD|235921 PRK07056, PRK07056, amidase; Provisional.
Length = 454
Score = 29.1 bits (66), Expect = 2.5
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 180 SLDTFCPLGPSV 191
+LD+ PL SV
Sbjct: 215 TLDSIGPLARSV 226
>gnl|CDD|176219 cd08258, Zn_ADH4, Alcohol dehydrogenases of the MDR family. This
group shares the zinc coordination 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 an
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 = 306
Score = 28.4 bits (64), Expect = 3.9
Identities = 15/79 (18%), Positives = 30/79 (37%), Gaps = 16/79 (20%)
Query: 194 KEYLNDPHDVTLTCKVNGQV-KQNASSSNMLHKIPEIVSYLSEMIT-------------- 238
+Y PH + + +G + LH++PE +S + +T
Sbjct: 101 GDYNLCPHRKGIGTQADGGFAEYVLVPEESLHELPENLSLEAAALTEPLAVAVHAVAERS 160
Query: 239 -LLPGDVILTGTPAGVGVF 256
+ PGD ++ P +G+
Sbjct: 161 GIRPGDTVVVFGPGPIGLL 179
>gnl|CDD|236490 PRK09376, rho, transcription termination factor Rho; Provisional.
Length = 416
Score = 28.6 bits (65), Expect = 3.9
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 26 NGEIINLSSVDSSMPNNLVQFLEGGPELLEKAKRMVSECKCMVKLSEVELLPPITR 81
GE++ S+ D VQ E ++EKAKR+V E V V LL ITR
Sbjct: 222 KGEVVA-STFDEP-AERHVQVAE---MVIEKAKRLV-EHGKDV----VILLDSITR 267
>gnl|CDD|223924 COG0855, Ppk, Polyphosphate kinase [Inorganic ion transport and
metabolism].
Length = 696
Score = 28.4 bits (64), Expect = 4.7
Identities = 23/91 (25%), Positives = 32/91 (35%), Gaps = 14/91 (15%)
Query: 25 RNGEIINLSSVDSSMPNNLVQFLEGGPELLEKAKRMVSECKCMVKLSEVELLPPITRPDK 84
R GE + L + MP L +FL L E V + L ++ +P + RPD
Sbjct: 259 RTGEPVRLE-IQDDMPEALREFLLQELGLSEND---VYVVGGPLNLKDLWEIPNVGRPD- 313
Query: 85 ILCIALNYKDHCDEQNKTYPETPFFFNKFPS 115
L Y N P F K +
Sbjct: 314 -----LKYPPF----NPFLPRRHAFREKGGN 335
>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a
bacterial ATP-dependent RNA/DNA helicase. It is a
homohexamer. Each monomer consists of an N-terminal
domain of the OB fold, which is responsible for binding
to cysteine rich nucleotides. This alignment is of the
C-terminal ATP binding domain.
Length = 249
Score = 27.7 bits (62), Expect = 5.6
Identities = 23/56 (41%), Positives = 27/56 (48%), Gaps = 10/56 (17%)
Query: 26 NGEIINLSSVDSSMPNNLVQFLEGGPELLEKAKRMVSECKCMVKLSEVELLPPITR 81
GE+I +S P VQ E +LEKAKR+V E V V LL ITR
Sbjct: 69 KGEVI--ASTFDEPPERHVQVAE---MVLEKAKRLV-EHGKDV----VILLDSITR 114
>gnl|CDD|240432 PTZ00477, PTZ00477, rhoptry-associated protein; Provisional.
Length = 524
Score = 27.8 bits (62), Expect = 6.0
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 114 PSTIVGPFSEVTCPTNVTRYLD 135
P ++V C VT++L+
Sbjct: 308 PMDFCKGNAKVGCKELVTKFLE 329
>gnl|CDD|214521 smart00115, CASc, Caspase, interleukin-1 beta converting enzyme
(ICE) homologues. Cysteine aspartases that mediate
programmed cell death (apoptosis). Caspases are
synthesised as zymogens and activated by proteolysis of
the peptide backbone adjacent to an aspartate. The
resulting two subunits associate to form an
(alpha)2(beta)2-tetramer which is the active enzyme.
Activation of caspases can be mediated by other caspase
homologues.
Length = 241
Score = 27.6 bits (62), Expect = 6.0
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 11/67 (16%)
Query: 165 WQKSSRNGGQWLFAKSLDTFCPLGPSVVMKEYLNDPHDVTLTCKVNGQVKQNASSSNMLH 224
W+ +R G W F +SL V+KEY + + +VN +V S N
Sbjct: 175 WRNPTR--GSW-FIQSLCQ--------VLKEYARSLDLLDILTEVNRKVADKFESVNAKK 223
Query: 225 KIPEIVS 231
++P I S
Sbjct: 224 QMPTIES 230
>gnl|CDD|235500 PRK05557, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Validated.
Length = 248
Score = 27.5 bits (62), Expect = 6.2
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 25 RNGEIINLSSVDSSMPN 41
R+G IIN+SSV M N
Sbjct: 133 RSGRIINISSVVGLMGN 149
>gnl|CDD|151320 pfam10871, DUF2748, Protein of unknown function (DUF2748). This is
a bacterial family of proteins with unknown function.
Length = 452
Score = 27.7 bits (61), Expect = 7.5
Identities = 16/51 (31%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 191 VVMKEYLNDPHDVTLTCKVNGQV-KQNASSSNMLHKIPEIVSYLSEMITLL 240
+ E LNDPH + T + + K+ A ++HKI +I L + I L
Sbjct: 59 AISNEELNDPHLIHETKALFQNIYKKIAEDDKVIHKIKQIFDNLKKKIAKL 109
>gnl|CDD|163461 TIGR03749, conj_TIGR03749, integrating conjugative element protein,
PFL_4704 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida TOL plasmid pWWO_p085. Usually, however, they are
found on the bacterial main chromosome in a region
flanked by markers of conjugative transfer and/or
transposition [Mobile and extrachromosomal element
functions, Plasmid functions].
Length = 257
Score = 27.3 bits (61), Expect = 8.7
Identities = 10/43 (23%), Positives = 14/43 (32%), Gaps = 5/43 (11%)
Query: 15 TPQRLGVQLERNGEIINL-----SSVDSSMPNNLVQFLEGGPE 52
P RL +Q +GEII L V+ +
Sbjct: 71 PPTRLQLQDVDSGEIILLDIAATPKKAGQKSLEPVRIVYESKV 113
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
0.317 0.135 0.407
Gapped
Lambda K H
0.267 0.0767 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,245,873
Number of extensions: 1209976
Number of successful extensions: 1095
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1076
Number of HSP's successfully gapped: 26
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
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: 58 (26.0 bits)