RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 025333
(254 letters)
>gnl|CDD|216250 pfam01026, TatD_DNase, TatD related DNase. This family of proteins
are related to a large superfamily of metalloenzymes.
TatD, a member of this family has been shown
experimentally to be a DNase enzyme.
Length = 255
Score = 167 bits (425), Expect = 3e-51
Identities = 73/237 (30%), Positives = 103/237 (43%), Gaps = 48/237 (20%)
Query: 10 FVQERTPNWFSTLKEF--FEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKEL 67
E + L++ E A+GEIGLD E Q VFR+QLELAKEL
Sbjct: 65 EADEASEEVLEALEKLLLAEHPKVVAIGEIGLDYYYV-DESPKEAQEEVFRRQLELAKEL 123
Query: 68 KRPASIHCVRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSM 127
P IH A DLLEI+K G V++H + GS E E+ LG Y S SG +
Sbjct: 124 DLPVVIHTRDAEEDLLEILKEAGAPGLRVVLHCFTGSLETAKEILDLGFYISISGIVTFK 183
Query: 128 KAQKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGS 187
A+K ++++ +P +R+L+ETDAP P P G
Sbjct: 184 NAKKLREVVAEIPLDRLLVETDAPYLAPV--------------------------PYRGK 217
Query: 188 ASDNQFHASKDSSTLPKETLNHPANIHNVLDYVASLLDMTKEELAELSYRNAIRLFS 244
N PA + V + +A L +++EE+A+++ NA RLF
Sbjct: 218 R-------------------NEPAYVPYVAEKLAELKGISEEEVAKITTENAKRLFG 255
>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins; E.coli TatD is a
cytoplasmic protein, shown to have magnesium dependent
DNase activity.
Length = 251
Score = 163 bits (414), Expect = 1e-49
Identities = 75/235 (31%), Positives = 100/235 (42%), Gaps = 48/235 (20%)
Query: 10 FVQERTPNWFSTLKEFFEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELKR 69
E L+ A+GEIGLD + Q VFR QLELAKEL
Sbjct: 65 DADEHVDEDLDLLELLAANPKVVAIGEIGLDYYRDKSPREV--QKEVFRAQLELAKELNL 122
Query: 70 PASIHCVRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMKA 129
P IH A D+LEI+K GP P + H + GSAE EL LG Y S SG + A
Sbjct: 123 PVVIHSRDAHEDVLEILKEYGP-PKRGVFHCFSGSAEEAKELLDLGFYISISGIVTFKNA 181
Query: 130 QKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGSAS 189
+ ++++K +P ER+LLETD+P P P G
Sbjct: 182 NELREVVKEIPLERLLLETDSPYLAPV--------------------------PFRGKR- 214
Query: 190 DNQFHASKDSSTLPKETLNHPANIHNVLDYVASLLDMTKEELAELSYRNAIRLFS 244
N PA + +V + +A L ++ EE+AE++ NA RLF
Sbjct: 215 ------------------NEPAYVKHVAEKIAELKGISVEEVAEVTTENAKRLFG 251
>gnl|CDD|223162 COG0084, TatD, Mg-dependent DNase [DNA replication, recombination,
and repair].
Length = 256
Score = 145 bits (367), Expect = 1e-42
Identities = 77/236 (32%), Positives = 105/236 (44%), Gaps = 48/236 (20%)
Query: 10 FVQERTPNWFSTLKEFFEITP-AAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELK 68
E + L++ E P A+GEIGLD +E D Q VF QLELAKEL
Sbjct: 67 DADEHSEEDLEELEQLAEHHPKVVAIGEIGLDY-YWDKEPDKERQEEVFEAQLELAKELN 125
Query: 69 RPASIHCVRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMK 128
P IH A D LEI+K G P G ++H + GSAE +L LG Y S SG +
Sbjct: 126 LPVIIHTRDAHEDTLEILKEEGA-PVGGVLHCFSGSAEEARKLLDLGFYISISGIVTFKN 184
Query: 129 AQKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGSA 188
A+K +++ + +P +R+LLETDAP P P G
Sbjct: 185 AEKLREVARELPLDRLLLETDAPYLAPV--------------------------PYRGKR 218
Query: 189 SDNQFHASKDSSTLPKETLNHPANIHNVLDYVASLLDMTKEELAELSYRNAIRLFS 244
N PA + +V + +A L ++ EE+AE++ NA RLF
Sbjct: 219 -------------------NEPAYVRHVAEKLAELKGISAEEVAEITTENAKRLFG 255
>gnl|CDD|232780 TIGR00010, TIGR00010, hydrolase, TatD family. PSI-BLAST, starting
with a urease alpha subunit, finds a large superfamily
of proteins, including a number of different enzymes
that act as hydrolases at C-N bonds other than peptide
bonds (EC 3.5.-.-), many uncharacterized proteins, and
the members of this family. Several genomes have
multiple paralogs related to this family. However, a set
of 17 proteins can be found, one each from 17 of the
first 20 genomes, such that each member forms a
bidirectional best hit across genomes with all other
members of the set. This core set (and one other
near-perfect member), but not the other paralogs, form
the seed for this model. Additionally, members of the
seed alignment and all trusted hits, but not all
paralogs, have a conserved motif DxHxH near the amino
end. The member from E. coli was recently shown to have
DNase activity [Unknown function, Enzymes of unknown
specificity].
Length = 252
Score = 124 bits (313), Expect = 1e-34
Identities = 65/234 (27%), Positives = 100/234 (42%), Gaps = 48/234 (20%)
Query: 11 VQERTPNWFSTLKEFFEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELKRP 70
V + T L+ A+GE GLD Q VFR QL+LA+EL P
Sbjct: 66 VDDDTKEDIKELERLAAHPKVVAIGETGLDYYKADEYKRR--QEEVFRAQLQLAEELNLP 123
Query: 71 ASIHCVRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMKAQ 130
IH A D+L+I++ P G ++H + G AE+ +L LG Y S SG + A+
Sbjct: 124 VIIHARDAEEDVLDILREEKP-KVGGVLHCFTGDAELAKKLLDLGFYISISGIVTFKNAK 182
Query: 131 KAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGSASD 190
+++++ +P ER+L+ETD+P +L P K
Sbjct: 183 SLREVVRKIPLERLLVETDSP-----------YLA------PVPYRGKR----------- 214
Query: 191 NQFHASKDSSTLPKETLNHPANIHNVLDYVASLLDMTKEELAELSYRNAIRLFS 244
N PA + ++ +A + M EELA+++ +NA RLF
Sbjct: 215 -----------------NEPAFVRYTVEAIAEIKGMDVEELAQITTKNAKRLFG 251
>gnl|CDD|236767 PRK10812, PRK10812, putative DNAse; Provisional.
Length = 265
Score = 68.6 bits (168), Expect = 1e-13
Identities = 60/240 (25%), Positives = 100/240 (41%), Gaps = 55/240 (22%)
Query: 19 FSTLKEFFEITPAAAVGEIGLD----KGSKGREIDFMDQVGVFRQQLELAKELKRPASIH 74
L+ A+GE GLD +K R Q FR +++ +EL +P +H
Sbjct: 77 VEELRRLAAEEGVVAMGETGLDYYYTPETKVR------QQESFRHHIQIGRELNKPVIVH 130
Query: 75 CVRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMKAQKAKK 134
A D L I++ G ++H + E +L LG Y SFSG + A++ +
Sbjct: 131 TRDARADTLAILREEKVTDCGGVLHCFTEDRETAGKLLDLGFYISFSGIVTFRNAEQLRD 190
Query: 135 MLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGSASDNQFH 194
+ VP +R+L+ETD+P P +P H
Sbjct: 191 AARYVPLDRLLVETDSPYLAP---------------VP---------------------H 214
Query: 195 ASKDSSTLPKETLNHPANIHNVLDYVASLLDMTKEELAELSYRNAIRLFSYEGSKILTEK 254
K+ N PA + +V +Y+A L ++ EELA+++ N RLF + S++ + +
Sbjct: 215 RGKE---------NQPAMVRDVAEYMAVLKGVSVEELAQVTTDNFARLFHIDASRLQSIR 265
>gnl|CDD|224024 COG1099, COG1099, Predicted metal-dependent hydrolases with the
TIM-barrel fold [General function prediction only].
Length = 254
Score = 60.1 bits (146), Expect = 9e-11
Identities = 44/150 (29%), Positives = 73/150 (48%), Gaps = 22/150 (14%)
Query: 22 LKEFFEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELKRPASIHCVR---- 77
L+E A+GEIGL++ + ++ VFR+QLELA+EL P +H R
Sbjct: 88 LEELLSNEDVVAIGEIGLEEATD-------EEKEVFREQLELARELDVPVIVHTPRRNKK 140
Query: 78 -AFGDLLEIMKSVGPFPDGVII-HSYLGSAEMVPELSKLGAYFSFSGFLMSMKAQKAKKM 135
A +L+I+ G P V+I H + E V E+ Y + + ++A ++
Sbjct: 141 EATSKILDILIESGLKPSLVVIDHV---NEETVDEVLDEEFYVGLTVQPGKLTVEEAVEI 197
Query: 136 LKVVPSERILLETDA------PDALPKAEL 159
++ +ERI+L +DA P A+P+ L
Sbjct: 198 VREYGAERIILNSDAGSAASDPLAVPRTAL 227
>gnl|CDD|182449 PRK10425, PRK10425, DNase TatD; Provisional.
Length = 258
Score = 60.1 bits (146), Expect = 1e-10
Identities = 45/134 (33%), Positives = 67/134 (50%), Gaps = 21/134 (15%)
Query: 33 AVGEIGLD---KGSKGREIDFMDQVGVFRQQLELAKELKRPASIHCVRA---FGDLLEIM 86
A+GE GLD S E Q F QL +A EL P +HC A F LLE
Sbjct: 88 AIGECGLDFNRNFSTPEE-----QERAFVAQLAIAAELNMPVFMHCRDAHERFMALLE-- 140
Query: 87 KSVGPFPD---GVIIHSYLGSAEMVPELSKLGAYFSFSGFLM-SMKAQKAKKMLKVVPSE 142
P+ D G ++H + G+ E + G Y +G++ + + +++L ++P+E
Sbjct: 141 ----PWLDKLPGAVLHCFTGTREEMQACLARGLYIGITGWVCDERRGLELRELLPLIPAE 196
Query: 143 RILLETDAPDALPK 156
R+LLETDAP LP+
Sbjct: 197 RLLLETDAPYLLPR 210
>gnl|CDD|171118 PRK11449, PRK11449, putative deoxyribonuclease YjjV; Provisional.
Length = 258
Score = 55.7 bits (134), Expect = 3e-09
Identities = 55/211 (26%), Positives = 78/211 (36%), Gaps = 48/211 (22%)
Query: 33 AVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELKRPASIHCVRAFGDLLEIMKSVGPF 92
AVGEIGLD G + F Q + +QL+LAK P +H R L +K
Sbjct: 94 AVGEIGLDL--FGDDPQFERQQWLLDEQLKLAKRYDLPVILHSRRTHDKLAMHLKR-HDL 150
Query: 93 PDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMKAQKAKKMLKVVPSERILLETDAPD 152
P ++H + GS + +LG G + +A K + ++ +P +LLETDAPD
Sbjct: 151 PRTGVVHGFSGSLQQAERFVQLGYKIGVGGTITYPRASKTRDVIAKLPLASLLLETDAPD 210
Query: 153 ALPKAELNSLFLVDGDPSLPQELSAKEEHSPNVGSASDNQFHASKDSSTLPKETLNHPAN 212
+P LN G P N P
Sbjct: 211 -MP---LNGF---QGQP--------------------------------------NRPEQ 225
Query: 213 IHNVLDYVASLLDMTKEELAELSYRNAIRLF 243
V D + L +E+AE+ N LF
Sbjct: 226 AARVFDVLCELRPEPADEIAEVLLNNTYTLF 256
>gnl|CDD|238617 cd01292, metallo-dependent_hydrolases, Superfamily of
metallo-dependent hydrolases (also called amidohydrolase
superfamily) is a large group of proteins that show
conservation in their 3-dimensional fold (TIM barrel)
and in details of their active site. The vast majority
of the members have a conserved metal binding site,
involving four histidines and one aspartic acid residue.
In the common reaction mechanism, the metal ion (or
ions) deprotonate a water molecule for a nucleophilic
attack on the substrate. The family includes urease
alpha, adenosine deaminase, phosphotriesterase
dihydroorotases, allantoinases, hydantoinases, AMP-,
adenine and cytosine deaminases, imidazolonepropionase,
aryldialkylphosphatase, chlorohydrolases,
formylmethanofuran dehydrogenases and others.
Length = 275
Score = 33.1 bits (75), Expect = 0.11
Identities = 22/114 (19%), Positives = 38/114 (33%), Gaps = 11/114 (9%)
Query: 47 EIDFMDQVGVFRQQLELAKELKRPASIHC---VRAFGDLLEIMKSVGPFPDGVIIHSYLG 103
R+ LE A++L P IH L +++ + VI H
Sbjct: 125 YTATGLSDESLRRVLEEARKLGLPVVIHAGELPDPTRALEDLVALLRLGGRVVIGHVSHL 184
Query: 104 SAEMVPELSKLGAYFSFSG----FLMSMKAQKA--KKMLKVVPSERILLETDAP 151
E++ L + G L +++L++ R+ L TD P
Sbjct: 185 DPELLELLKEAGVSLEVCPLSNYLLGRDGEGAEALRRLLELGI--RVTLGTDGP 236
>gnl|CDD|179417 PRK02382, PRK02382, dihydroorotase; Provisional.
Length = 443
Score = 33.1 bits (76), Expect = 0.14
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 15 TPNWFSTLKEFFEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELKRPASIH 74
T NW L+ +E A+GEI + + G ID F + L A L A++H
Sbjct: 127 TGNW-DPLESLWER-GVFALGEIFMADSTGGMGIDEEL----FEEALAEAARLGVLATVH 180
>gnl|CDD|132746 cd06948, NR_LBD_COUP-TF, Ligand binding domain of chicken ovalbumin
upstream promoter transcription factors, a member of the
nuclear receptor family. The ligand binding domain of
chicken ovalbumin upstream promoter transcription
factors (COUP-TFs): COUP-TFs are orphan members of the
steroid/thyroid hormone receptor superfamily. They are
expressed in many tissues and are involved in the
regulation of several important biological processes,
such as neurogenesis, organogenesis, cell fate
determination, and metabolic homeostasis. In mammals two
isoforms named COUP-TFI and COUP-TFII have been
identified. Both genes show an exceptional homology and
overlapping expression patterns, suggesting that they
may serve redundant functions. Although COUP-TF was
originally characterized as a transcriptional activator
of the chicken ovalbumin gene, COUP-TFs are generally
considered to be repressors of transcription for other
nuclear hormone receptors, such as retinoic acid
receptor (RAR), thyroid hormone receptor (TR), vitamin D
receptor (VDR), peroxisome proliferator activated
receptor (PPAR), and hepatocyte nuclear factor 4 (HNF4).
Like other members of the nuclear receptor (NR)
superfamily of ligand-activated transcription factors,
COUP-TFs have a central well cons erved DNA binding
domain (DBD), a variable N-terminal domain, a flexible
hinge and a C-terminal ligand binding domain (LBD).
Length = 236
Score = 32.0 bits (73), Expect = 0.22
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 26 FEITPAAAVGEIGLDKGSKGREIDFMDQVGVFRQQLELAKELK-RPASIHCVRA 78
+ P A + S R + FMD + +F++Q+E K L A C++A
Sbjct: 87 LHVAPLLAAAGLHASPMSADRVVAFMDHIRIFQEQVEKLKALHVDSAEFSCLKA 140
>gnl|CDD|218322 pfam04909, Amidohydro_2, Amidohydrolase. These proteins are
amidohydrolases that are related to pfam01979.
Length = 272
Score = 30.6 bits (69), Expect = 0.60
Identities = 29/138 (21%), Positives = 47/138 (34%), Gaps = 20/138 (14%)
Query: 61 LELAKELKRPASIHCVRAFG-------DLLEIMKSVGPFPDGVII-----HSYLGSAEMV 108
E EL P +H L + FPD I+ ++ +
Sbjct: 123 FEALAELGLPVDLHTGFGDAGEDLDAAQPLLLSGLARRFPDLKIVLDHGGGPWIPEGLRL 182
Query: 109 PELS-------KLGAYFSFSGFLMSMKAQKA-KKMLKVVPSERILLETDAPDALPKAELN 160
L+ KL SGF A ++++ +RIL +D P + L
Sbjct: 183 ALLARRPNVYVKLSGLGRRSGFDSPAADPPALAELIEAFGPDRILFGSDYPHPPLERPLA 242
Query: 161 SLFLVDGDPSLPQELSAK 178
+L L+D +L +E K
Sbjct: 243 ALDLLDLLDALSEEEREK 260
>gnl|CDD|130381 TIGR01314, gntK_FGGY, gluconate kinase, FGGY type. Gluconate is
derived from glucose in two steps. This model describes
one form of gluconate kinase, belonging to the FGGY
family of carbohydrate kinases. Gluconate kinase
phosphoryates gluconate for entry into the
Entner-Douderoff pathway [Energy metabolism, Sugars].
Length = 505
Score = 29.9 bits (67), Expect = 1.5
Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 76 VRAFGDLLEIMKSVGPFPDGVIIHSYLGSAEMVPELSKLGAYFSFSGFLMSMK 128
+ + L EI V P DG++ H YL E P L A SF G S K
Sbjct: 321 IDPYDVLTEIAARVSPGADGLLFHPYLA-GERAP-LWNANARGSFFGLTYSHK 371
>gnl|CDD|171438 PRK12363, PRK12363, phosphoglycerol transferase I; Provisional.
Length = 703
Score = 28.3 bits (63), Expect = 4.1
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 133 KKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAK 178
K + V+ S+ + + D D L K + +L L G PQ++ +
Sbjct: 382 KNTIIVIASDHLAMPNDLSDVLTKQKRENLLLFLGKDIAPQQVVTR 427
>gnl|CDD|193466 pfam12993, DUF3877, Domain of unknown function, E. rectale Gene
description (DUF3877). Based on Eubacterium rectale
gene EUBREC_0237. As seen in gene expression experiments
(http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14
737), it appears to be upregulated in the presence of
Bacteroides thetaiotaomicron vs when isolated in
culture.
Length = 175
Score = 27.6 bits (62), Expect = 4.5
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 1/23 (4%)
Query: 222 SLLDMTKEELAELSYR-NAIRLF 243
+L+D+ KEE A+L YR IRL+
Sbjct: 7 NLIDVIKEEQAKLGYRKETIRLY 29
>gnl|CDD|168162 PRK05665, PRK05665, amidotransferase; Provisional.
Length = 240
Score = 27.9 bits (62), Expect = 4.8
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 209 HPANIHNVLDYVASLLDMTKEELAELSYRNAI 240
HP +H DY +LLD+ +E L E Y +
Sbjct: 185 HPEFVH---DYSRALLDLRQEHLGEEVYSKGV 213
>gnl|CDD|198066 smart00998, ADSL_C, Adenylosuccinate lyase C-terminus.
Adenylosuccinate lyase catalyses two steps in the
synthesis of purine nucleotides: the conversion of
succinylaminoimidazole-carboxamide ribotide into
aminoimidazole-carboxamide ribotide (the fifth step of
de novo IMP biosynthesis); the formation of adenosine
monophosphate (AMP) from adenylosuccinate (the final
step in the synthesis of AMP from IMP). This entry
represents the C-terminal, seven alpha-helical, domain
of adenylosuccinate lyase.
Length = 81
Score = 25.9 bits (58), Expect = 6.5
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 126 SMKAQKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPS 170
+MKA + K L+ E +L + + L + EL LF DP
Sbjct: 31 AMKAWEEGKDLR----ELLLADPEVTAYLSEEELEELF----DPE 67
>gnl|CDD|233777 TIGR02205, septum_zipA, cell division protein ZipA. This model
represents the full length of bacterial cell division
protein ZipA. The N-terminal hydrophobic stretch is an
uncleaved signal-anchor sequence. This is followed by an
unconserved, variable length, low complexity region, and
then a conserved C-terminal region of about 140 amino
acids (see pfam04354) that interacts with the
tubulin-like cell division protein FtsZ [Cellular
processes, Cell division].
Length = 284
Score = 27.6 bits (61), Expect = 7.2
Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 126 SMKAQKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPSLPQELSAKEEHSPNV 185
+ + +K+K K P +R+ L++D P + + ++ + +E+H P++
Sbjct: 24 TSRKEKSKYFDKA-PLDRMKLKSDDPTSEEMVQPDNSPNTRVERGEHPIPQPREQHLPSI 82
Query: 186 GSASDNQFHASKD 198
Q S D
Sbjct: 83 SELVAYQRDKSVD 95
>gnl|CDD|239454 cd03338, TCP1_delta, TCP-1 (CTT or eukaryotic type II) chaperonin
family, delta subunit. Chaperonins are involved in
productive folding of proteins. They share a common
general morphology, a double toroid of 2 stacked rings.
In contrast to bacterial group I chaperonins (GroEL),
each ring of the eukaryotic cytosolic chaperonin (CTT)
consists of eight different, but homologous subunits.
Their common function is to sequester nonnative proteins
inside their central cavity and promote folding by using
energy derived from ATP hydrolysis. The best studied in
vivo substrates of CTT are actin and tubulin.
Length = 515
Score = 27.3 bits (61), Expect = 9.0
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 53 QVGVFRQQLELAKELKRPASIHCVRAFGDLLEI 85
++ + Q E A+ L +CVRAF D LE+
Sbjct: 406 EIEIALQLSEWARTLTG-VEQYCVRAFADALEV 437
>gnl|CDD|233451 TIGR01531, glyc_debranch, glycogen debranching enzymye. glycogen
debranching enzyme possesses two different catalytic
activities; oligo-1,4-->1,4-glucantransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33). Site
directed mutagenesis studies in S. cerevisiae indicate
that the transferase and glucosidase activities are
independent and located in different regions of the
polypeptide chain. Proteins in this model belong to the
larger alpha-amylase family. The model covers eukaryotic
proteins with a seed composed of human, nematode and
yeast sequences. Yeast seed sequence is well
characterized. The model is quite rigorous; either query
sequence yields large bit score or it fails to hit the
model altogether. There doesn't appear to be any middle
ground [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 1464
Score = 27.5 bits (61), Expect = 9.0
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 7/46 (15%)
Query: 203 PKETLNHP--ANIHN---VLDYVASLLDMTKEELAELSYRNAIRLF 243
PK L HP N+ + +LDY++S L+ EEL E+S N +R
Sbjct: 898 PKNDLGHPLCNNLRDGHWMLDYISSRLNSYSEELGEVS--NWLRAR 941
>gnl|CDD|220731 pfam10397, ADSL_C, Adenylosuccinate lyase C-terminus. This is the
C-terminal seven alpha helices of the structure whose
full length represents the enzyme adenylosuccinate
lyase. This sequence lies C-terminal to the conserved
motif necessary for beta-elimination reactions,
Adenylosuccinate lyase catalyzes two steps in the
synthesis of purine nucleotides: the conversion of
succinylaminoimidazole-carboxamide ribotide into
aminoimidazole-carboxamide ribotide, the eighth step of
the de novo pathway, and the formation of adenosine
monophosphate (AMP) from adenylosuccinate, the second
step in the conversion of inosine monophosphate into
AMP.
Length = 80
Score = 25.5 bits (57), Expect = 9.1
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 8/45 (17%)
Query: 126 SMKAQKAKKMLKVVPSERILLETDAPDALPKAELNSLFLVDGDPS 170
+MKA + + L+ E +L + + L + EL++LF DP+
Sbjct: 30 AMKAWEEGRDLR----EVLLADPEVAAYLSEEELDALF----DPA 66
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 0.134 0.384
Gapped
Lambda K H
0.267 0.0865 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,039,331
Number of extensions: 1237915
Number of successful extensions: 1140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1126
Number of HSP's successfully gapped: 40
Length of query: 254
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 159
Effective length of database: 6,723,972
Effective search space: 1069111548
Effective search space used: 1069111548
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 (21.7 bits)
S2: 58 (25.9 bits)