RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy178
(84 letters)
>gnl|CDD|216494 pfam01425, Amidase, Amidase.
Length = 431
Score = 86.6 bits (215), Expect = 1e-21
Identities = 34/75 (45%), Positives = 42/75 (56%)
Query: 7 VDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVN 66
V G+ G+ L+G DA +V+ LR AGA+ L TN+ E T N G T N
Sbjct: 60 VKGVPTTAGSKALEGYPPPYDATVVERLRAAGAVILGKTNMDEFAMGSTTENSAFGPTRN 119
Query: 67 PYDFSRTPGGSSGGE 81
P+D SRTPGGSSGG
Sbjct: 120 PWDLSRTPGGSSGGS 134
>gnl|CDD|223232 COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit
and related amidases [Translation, ribosomal structure
and biogenesis].
Length = 475
Score = 82.0 bits (203), Expect = 4e-20
Identities = 30/74 (40%), Positives = 38/74 (51%)
Query: 7 VDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVN 66
GL G+ L+ DA +V+ LR AGA+ L TN+ E T N G T N
Sbjct: 87 TAGLPTTAGSKALEDYVPPYDATVVERLRAAGAVILGKTNMDEFAMGSSTENSAFGPTRN 146
Query: 67 PYDFSRTPGGSSGG 80
P++ R PGGSSGG
Sbjct: 147 PWNLERVPGGSSGG 160
>gnl|CDD|235723 PRK06170, PRK06170, amidase; Provisional.
Length = 490
Score = 79.3 bits (196), Expect = 4e-19
Identities = 35/74 (47%), Positives = 43/74 (58%)
Query: 7 VDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVN 66
V GL G L+ +EDA V L+ AGA+ L TNVP W++ N I G T N
Sbjct: 89 VAGLPTTWGFPDLRDYVPAEDAVAVARLKAAGAVILGKTNVPLGLQDWQSYNEIYGTTNN 148
Query: 67 PYDFSRTPGGSSGG 80
P+D +RTPGGSSGG
Sbjct: 149 PWDLARTPGGSSGG 162
>gnl|CDD|236029 PRK07487, PRK07487, amidase; Provisional.
Length = 469
Score = 78.5 bits (194), Expect = 8e-19
Identities = 34/76 (44%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 7 VD--GLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKT 64
VD G + G K A D+P+V LR+AGA+ + TN P W T N + G+T
Sbjct: 84 VDQAGFATTNGVRLQKDLIAPADSPVVDNLRKAGAVIIGRTNTPAFSYRWFTDNPLHGRT 143
Query: 65 VNPYDFSRTPGGSSGG 80
+NP+D S TPGGSSGG
Sbjct: 144 LNPWDPSLTPGGSSGG 159
>gnl|CDD|236030 PRK07488, PRK07488, indole acetimide hydrolase; Validated.
Length = 472
Score = 69.2 bits (170), Expect = 1e-15
Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 11 SNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDF 70
+ T AL G + DAP+V+ L +AGA+PL N+ EL + N G NPYD
Sbjct: 93 TAGTPALL--GFVPATDAPVVQRLLDAGAVPLGKANMHELAFGITSNNGAFGAVRNPYDP 150
Query: 71 SRTPGGSSGG 80
+R GGSSGG
Sbjct: 151 ARIAGGSSGG 160
>gnl|CDD|180437 PRK06169, PRK06169, putative amidase; Provisional.
Length = 466
Score = 64.3 bits (157), Expect = 7e-14
Identities = 27/56 (48%), Positives = 31/56 (55%)
Query: 25 SEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
DAP V LREAGA+ L T PE T + + G T NP+D T GGSSGG
Sbjct: 104 DVDAPAVARLREAGAVLLGKTTTPEFGWKGVTDSPLYGITRNPWDTRLTAGGSSGG 159
>gnl|CDD|236161 PRK08137, PRK08137, amidase; Provisional.
Length = 497
Score = 62.5 bits (152), Expect = 3e-13
Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
Query: 8 DGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYIT------ 61
D + G+L L G + + DA +V LR+AGA+ L N+ E ++ +T +
Sbjct: 88 DPMPTTAGSLALAGNRPTRDAFLVARLRDAGAVILGKANLSEW-ANFRSTRSSSGWSARG 146
Query: 62 GKTVNPYDFSRTPGGSSGG 80
G T NPY R+P GSS G
Sbjct: 147 GLTRNPYALDRSPCGSSSG 165
>gnl|CDD|171524 PRK12470, PRK12470, amidase; Provisional.
Length = 462
Score = 61.4 bits (149), Expect = 8e-13
Identities = 31/60 (51%), Positives = 39/60 (65%)
Query: 21 GRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
G A+ DA +V+ LR AGA+ + TNVPEL T + G T NP+D +RTPGGSSGG
Sbjct: 99 GPAATSDAEVVRRLRAAGAVIIGKTNVPELMIMPFTESLAFGATRNPWDPNRTPGGSSGG 158
>gnl|CDD|236028 PRK07486, PRK07486, amidase; Provisional.
Length = 484
Score = 59.6 bits (145), Expect = 3e-12
Identities = 29/56 (51%), Positives = 35/56 (62%)
Query: 25 SEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
EDA +V+ +R AGAI + TN PE T N + G T NPYD SR+ GGSSGG
Sbjct: 109 QEDAIVVERMRAAGAIFIGKTNTPEFGLGSHTYNPVYGATRNPYDPSRSAGGSSGG 164
>gnl|CDD|234572 PRK00012, gatA, aspartyl/glutamyl-tRNA amidotransferase subunit A;
Reviewed.
Length = 459
Score = 56.3 bits (137), Expect = 5e-11
Identities = 30/70 (42%), Positives = 40/70 (57%), Gaps = 5/70 (7%)
Query: 14 TGALK-LKGRKASEDAPIVKILREAGAIPLCNTNVPELC--TSWETTNYITGKTVNPYDF 70
T A K L+ DA +V+ L+ AGA+ L TN+ E +S E + + G T NP+D
Sbjct: 75 TCASKILENYVPPYDATVVEKLKAAGAVILGKTNMDEFAMGSSTENSAF--GPTKNPWDL 132
Query: 71 SRTPGGSSGG 80
R PGGSSGG
Sbjct: 133 ERVPGGSSGG 142
>gnl|CDD|235686 PRK06061, PRK06061, amidase; Provisional.
Length = 483
Score = 51.6 bits (124), Expect = 2e-09
Identities = 26/60 (43%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 22 RKASEDAPIVKILREAGAIPLCNTNVPELCTSWE-TTNYITGKTVNPYDFSRTPGGSSGG 80
A+ D+ +V+ LR AGA+ + TN EL W T+ G T NP+ TPGGSSGG
Sbjct: 109 PPATADSEVVRRLRAAGAVIVGKTNTCEL-GQWPFTSGPAFGHTRNPWSRDHTPGGSSGG 167
>gnl|CDD|232842 TIGR00132, gatA, aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase,
A subunit. In many species, Gln--tRNA ligase is
missing. tRNA(Gln) is misacylated with Glu after which a
heterotrimeric amidotransferase converts Glu to Gln.
This model represents the amidase chain of that
heterotrimer, encoded by the gatA gene. In the Archaea,
Asn--tRNA ligase is also missing. This amidase subunit
may also function in the conversion of Asp-tRNA(Asn) to
Asn-tRNA(Asn), presumably with a different recognition
unit to replace gatB. Both Methanococcus jannaschii and
Methanobacterium thermoautotrophicum have both authentic
gatB and a gatB-related gene, but only one gene like
gatA. It has been shown that gatA can be expressed only
when gatC is also expressed. In most species expressing
the amidotransferase, the gatC ortholog is about 90
residues in length, but in Mycoplasma genitalium and
Mycoplasma pneumoniae the gatC equivalent is as the
C-terminal domain of a much longer protein. Not
surprisingly, the Mycoplasmas also represent the most
atypical lineage of gatA orthology. This orthology group
is more narrowly defined here than in Proc Natl Acad Aci
USA 94, 11819-11826 (1997). In particular, a Rhodococcus
homolog found in association with nitrile hydratase
genes and described as an enantiomer-selective amidase
active on several 2-aryl propionamides, is excluded
here. It is likely, however, that the amidase subunit
GatA is not exclusively a part of the Glu-tRNA(Gln)
amidotransferase heterotrimer and restricted to that
function in all species [Protein synthesis, tRNA
aminoacylation].
Length = 460
Score = 50.0 bits (120), Expect = 8e-09
Identities = 26/68 (38%), Positives = 37/68 (54%), Gaps = 1/68 (1%)
Query: 14 TGALK-LKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSR 72
T A K L+ DA +++ L++AGA+ + TN+ E T G T NP++ R
Sbjct: 75 TCASKILENYIPPYDATVIERLKQAGALIIGKTNMDEFAMGSSTETSAFGPTKNPWNLDR 134
Query: 73 TPGGSSGG 80
PGGSSGG
Sbjct: 135 VPGGSSGG 142
>gnl|CDD|180715 PRK06828, PRK06828, amidase; Provisional.
Length = 491
Score = 49.0 bits (117), Expect = 2e-08
Identities = 29/81 (35%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
Query: 8 DGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTS-----WETTNYITG 62
D + + G + L+ +SEDA +V LREAGA+ L N+ EL W + G
Sbjct: 95 DSMHTSAGTIALEQHISSEDAFLVTKLREAGAVILGKANMTELANFMSFEMWAGYSARGG 154
Query: 63 KTVNPYD---FSRTPGGSSGG 80
+T+NPY GGSS G
Sbjct: 155 QTINPYGTGEDDMFVGGSSTG 175
>gnl|CDD|235915 PRK07042, PRK07042, amidase; Provisional.
Length = 464
Score = 48.8 bits (117), Expect = 2e-08
Identities = 24/57 (42%), Positives = 31/57 (54%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
A+ DAP LREAGA+ L T +P+ + G T NP+D + PGGSS G
Sbjct: 102 AAADAPPAARLREAGAVILAKTTMPDYGMLSSGLSSFHGLTRNPWDLDQNPGGSSAG 158
>gnl|CDD|236409 PRK09201, PRK09201, amidase; Provisional.
Length = 465
Score = 46.1 bits (110), Expect = 2e-07
Identities = 29/75 (38%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 7 VDGLSNATGALKLKGRK-ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTV 65
V GL+ G+ + R A+ DA V+ L AGA+ + N+ E + T N G T
Sbjct: 85 VAGLTTLAGSKINRDRPPATRDATAVRRLEAAGAVLVGALNMDEYAYGFTTENSHYGATR 144
Query: 66 NPYDFSRTPGGSSGG 80
NP+D +R GGSSGG
Sbjct: 145 NPHDLTRIAGGSSGG 159
>gnl|CDD|235945 PRK07139, PRK07139, amidase; Provisional.
Length = 439
Score = 45.0 bits (107), Expect = 5e-07
Identities = 22/64 (34%), Positives = 29/64 (45%)
Query: 19 LKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSS 78
L+ K S +A +V+ L AGA P+ + EL G NP D S+ GGSS
Sbjct: 62 LENFKPSYNATVVQKLINAGAKPVAKVHCDELGLGGTGLFSAFGLIKNPLDSSKLVGGSS 121
Query: 79 GGEV 82
G
Sbjct: 122 SGSA 125
>gnl|CDD|233982 TIGR02715, amido_AtzE, amidohydrolase, AtzE family. Members of
this protein family are aminohydrolases related to, but
distinct from, glutamyl-tRNA(Gln) amidotransferase
subunit A. The best characterized member is the biuret
hydrolase of Pseudomonas sp. ADP, which hydrolyzes
ammonia from the three-nitrogen compound biuret to yield
allophanate. Allophanate is also an intermediate in urea
degradation by the urea carboxylase/allophanate
hydrolase pathway, an alternative to urease [Unknown
function, Enzymes of unknown specificity].
Length = 452
Score = 44.8 bits (106), Expect = 7e-07
Identities = 29/75 (38%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 7 VDGLSNATGA-LKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTV 65
V GL+ GA + A DA +V+ L AGA+ + N+ E + T N G T
Sbjct: 78 VAGLTTLAGAKINRDLAPAKRDATLVQRLSAAGAVLVGALNMDEFAYGFTTENAHYGPTR 137
Query: 66 NPYDFSRTPGGSSGG 80
NP+D +R GGSSGG
Sbjct: 138 NPHDLTRIAGGSSGG 152
>gnl|CDD|235698 PRK06102, PRK06102, hypothetical protein; Provisional.
Length = 452
Score = 44.3 bits (105), Expect = 9e-07
Identities = 29/77 (37%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 7 VDGLSNATGALKLKGRK-ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTV 65
V G G++ L AS DA +V +L AG + + TN+ E S N G V
Sbjct: 83 VAGSVTTAGSVVLANAAPASRDAAVVALLARAGMVSIGRTNMSEFAFSGLGLNPHYGTPV 142
Query: 66 NPY--DFSRTPGGSSGG 80
NP D R PGGSS G
Sbjct: 143 NPRSTDVPRIPGGSSSG 159
>gnl|CDD|168315 PRK05962, PRK05962, amidase; Validated.
Length = 424
Score = 43.2 bits (102), Expect = 2e-06
Identities = 23/57 (40%), Positives = 31/57 (54%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
A DA IV+ LR AGA+ + T++ E + N G+ N D +R PGGSS G
Sbjct: 77 AGADALIVQRLRNAGAVIIGKTHMTEFAFTPVGLNPHYGEPGNAIDPARIPGGSSSG 133
>gnl|CDD|233981 TIGR02713, allophanate_hyd, allophanate hydrolase. Allophanate
hydrolase catalyzes the second reaction in an
ATP-dependent two-step degradation of urea to ammonia
and C02, following the action of the biotin-containing
urea carboxylase. The yeast enzyme, a fusion of
allophanate hydrolase to urea carboxylase, is designated
urea amidolyase [Central intermediary metabolism,
Nitrogen metabolism].
Length = 561
Score = 42.7 bits (101), Expect = 4e-06
Identities = 22/57 (38%), Positives = 29/57 (50%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
EDA +V +LR AGAI + TN+ + T T G N +D + GGSS G
Sbjct: 61 PEEDATVVALLRAAGAIVVGKTNLDQFATGLVGTRSPYGAVRNAFDPAYISGGSSSG 117
>gnl|CDD|235855 PRK06707, PRK06707, amidase; Provisional.
Length = 536
Score = 42.2 bits (99), Expect = 5e-06
Identities = 26/78 (33%), Positives = 33/78 (42%), Gaps = 18/78 (23%)
Query: 15 GALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYIT-----------GK 63
G LK A +DA IVK L+E GA L N+ E NY++ G+
Sbjct: 159 GTYVLKDWIADQDATIVKQLKEEGAFVLGKANMSEW------ANYLSFTMPSGYSGKKGQ 212
Query: 64 TVNPYD-FSRTPGGSSGG 80
+NPY GSS G
Sbjct: 213 NLNPYGPIKFDTSGSSSG 230
>gnl|CDD|180608 PRK06529, PRK06529, amidase; Provisional.
Length = 482
Score = 41.3 bits (97), Expect = 9e-06
Identities = 24/72 (33%), Positives = 36/72 (50%)
Query: 9 GLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPY 68
G + +G+ K +A++ VK L + G I L +N PE + + + G P+
Sbjct: 79 GQLSTSGSRLFKNYQATKTDLYVKRLEDLGFIILGRSNTPEFGFKNISDSSLHGPVNLPF 138
Query: 69 DFSRTPGGSSGG 80
D SR GGSSGG
Sbjct: 139 DNSRNAGGSSGG 150
>gnl|CDD|235921 PRK07056, PRK07056, amidase; Provisional.
Length = 454
Score = 41.1 bits (97), Expect = 1e-05
Identities = 25/61 (40%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFS----RTPGGSSG 79
A+ DAP V LR AGA+ + TN+ E S N G NP+ R PGGSS
Sbjct: 103 AAADAPAVARLRRAGAVLIGRTNMTEFAFSGLGLNPHYGTPRNPWRRDVGDGRIPGGSSS 162
Query: 80 G 80
G
Sbjct: 163 G 163
>gnl|CDD|235979 PRK07235, PRK07235, amidase; Provisional.
Length = 502
Score = 38.1 bits (89), Expect = 1e-04
Identities = 26/76 (34%), Positives = 35/76 (46%)
Query: 5 VFVDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKT 64
V V G+ G+ L+G S DA +V L +AGA + +LC S + G
Sbjct: 99 VAVAGVPMMNGSSTLEGFVPSFDATVVTRLLDAGATIVGKATCEDLCFSGGSHTSDPGPV 158
Query: 65 VNPYDFSRTPGGSSGG 80
NP D + GGSS G
Sbjct: 159 HNPRDPGYSAGGSSSG 174
>gnl|CDD|181154 PRK07869, PRK07869, amidase; Provisional.
Length = 468
Score = 38.0 bits (89), Expect = 1e-04
Identities = 24/76 (31%), Positives = 32/76 (42%)
Query: 5 VFVDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKT 64
V V GL G+ R A D+ + G I L T +PE S T + G
Sbjct: 85 VDVAGLPTMHGSDAWTPRPAKADSDFARQFLATGLISLGKTQLPEFGFSASTEHPRLGPV 144
Query: 65 VNPYDFSRTPGGSSGG 80
NP++ + G SSGG
Sbjct: 145 RNPWNTDYSAGASSGG 160
>gnl|CDD|181375 PRK08310, PRK08310, amidase; Provisional.
Length = 395
Score = 36.9 bits (86), Expect = 3e-04
Identities = 24/57 (42%), Positives = 27/57 (47%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
A+ AP V+ L AGA + T EL S N G VNP R PGGSS G
Sbjct: 58 ATRTAPAVEKLLAAGARFVGKTQTDELAFSLNGQNAHYGTPVNPAAPDRVPGGSSSG 114
>gnl|CDD|236177 PRK08186, PRK08186, allophanate hydrolase; Provisional.
Length = 600
Score = 36.7 bits (86), Expect = 5e-04
Identities = 21/57 (36%), Positives = 26/57 (45%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
DA +V LR AGAI + TN+ + T T G N +D GGSS G
Sbjct: 98 PERDATVVARLRAAGAIVIGKTNLDQFATGLVGTRSPYGAVRNAFDPEYVSGGSSSG 154
>gnl|CDD|166363 PLN02722, PLN02722, indole-3-acetamide amidohydrolase.
Length = 422
Score = 36.4 bits (84), Expect = 5e-04
Identities = 20/57 (35%), Positives = 25/57 (43%)
Query: 24 ASEDAPIVKILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPYDFSRTPGGSSGG 80
A+ AP V + GA + T + E+ S N G NP R PGGSS G
Sbjct: 59 ATSTAPAVLAVLRGGATCVGKTIMDEMAYSINGENAHYGTPTNPIAPDRVPGGSSSG 115
>gnl|CDD|183377 PRK11910, PRK11910, amidase; Provisional.
Length = 615
Score = 36.2 bits (83), Expect = 7e-04
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 10 LSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSW--ETTNYITGK---T 64
L + G + LK +DA IV+ L+ GA+ L TN+ E + N +GK +
Sbjct: 246 LPTSAGTVALKDWVIGKDATIVENLKANGALILGKTNMSEWAAGMDEDLPNGYSGKKGQS 305
Query: 65 VNPYDFSRTPGGSSGG 80
NPY + P GSS G
Sbjct: 306 KNPYSSNLDPSGSSSG 321
>gnl|CDD|180626 PRK06565, PRK06565, amidase; Validated.
Length = 566
Score = 31.7 bits (72), Expect = 0.028
Identities = 19/42 (45%), Positives = 25/42 (59%)
Query: 7 VDGLSNATGALKLKGRKASEDAPIVKILREAGAIPLCNTNVP 48
V GL+ A+G+ K A DA ++ LR AGAI L TN+P
Sbjct: 89 VKGLTAASGSPAFKDLVAQRDAFTIERLRAAGAICLGKTNMP 130
>gnl|CDD|153239 cd03145, GAT1_cyanophycinase, Type 1 glutamine amidotransferase
(GATase1)-like domain found in cyanophycinase. Type 1
glutamine amidotransferase (GATase1)-like domain found
in cyanophycinase. This group contains proteins similar
to the extracellular cyanophycinases from Pseudomonas
anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803
CphB. Cyanophycinases are intracellular exopeptidases
which hydrolyze the polymer cyanophycin (multi
L-arginyl-poly-L-aspartic acid) to the dipeptide
beta-Asp-Arg. Cyanophycinase is believed to be a
serine-type exopeptidase having a Ser-His-Glu catalytic
triad which differs from the Cys-His-Glu catalytic triad
typical of GATase1 domains by having a Ser in place of
the reactive Cys at the nucleophile elbow.
Length = 217
Score = 28.8 bits (65), Expect = 0.24
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 17 LKLKGRKASEDAPIVKILREAGAIPLCNTNVPELCTSWETT 57
L + R+A+ D +V LR+A I + + ++ T
Sbjct: 64 LVIDSREAANDPEVVARLRDADGIFFTGGDQLRITSALGGT 104
>gnl|CDD|115050 pfam06368, Met_asp_mut_E, Methylaspartate mutase E chain (MutE).
This family consists of several methylaspartate mutase E
chain proteins (EC:5.4.99.1). Glutamate mutase catalyzes
the first step in the fermentation of glutamate by
Clostridium tetanomorphum. This is an unusual
isomerisation in which L-glutamate is converted to
threo-beta-methyl L-aspartate.
Length = 441
Score = 27.8 bits (62), Expect = 0.61
Identities = 18/72 (25%), Positives = 26/72 (36%), Gaps = 5/72 (6%)
Query: 1 MGGMVFVDGLSNATGALKLKGRKASEDAP---IVKILREAGAIPLCNTNVPELCTSWETT 57
MGG F S A G + A+ IVK EA IP N L + +
Sbjct: 253 MGG--FPRDESKAYGLISESTTIAALSGTTKVIVKTPHEASGIPTAEANAAGLRATKQAL 310
Query: 58 NYITGKTVNPYD 69
N + + + +
Sbjct: 311 NMLERQKIPMSE 322
>gnl|CDD|227202 COG4865, COG4865, Glutamate mutase epsilon subunit [Amino acid
transport and metabolism].
Length = 485
Score = 27.5 bits (61), Expect = 0.68
Identities = 17/72 (23%), Positives = 25/72 (34%), Gaps = 5/72 (6%)
Query: 1 MGGMVFVDGLSNATGALKLKGRKASEDAP---IVKILREAGAIPLCNTNVPELCTSWETT 57
MGG F + S A + A I K EA IP N+ L + +
Sbjct: 294 MGG--FPEDESKAFAIISWGAAVAGMSGATKVITKSPHEAWGIPTAAANIQGLKATRQML 351
Query: 58 NYITGKTVNPYD 69
N + + + P
Sbjct: 352 NMVNEQKIPPCP 363
>gnl|CDD|221234 pfam11805, DUF3326, Protein of unknown function (DUF3326). This
protein is functionally uncharacterized. It is about
300-500 amino acids in length. This family is found in
plants and bacteria.
Length = 339
Score = 26.8 bits (60), Expect = 1.2
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 31 VKILREAGAIPLC-NTNVPELCTSWETTNYITGKTVNPY 68
+ L +AGA + P+ S Y GK V+P
Sbjct: 148 GERLIKAGATAIAVVARFPDDPDSEALQAYRQGKGVDPL 186
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 27.0 bits (61), Expect = 1.3
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 21 GRKASEDAPIVKILREAGA 39
G+KAS A +V+ L E GA
Sbjct: 199 GQKASTVAQVVRKLEEHGA 217
>gnl|CDD|214709 smart00532, LIGANc, Ligase N family.
Length = 441
Score = 26.4 bits (59), Expect = 1.5
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 9/50 (18%)
Query: 25 SEDAPIV------KILREAGAIPLCNTNVPELCTSWETTNYITGKTVNPY 68
DAPI+ +++RE + + PEL T T + GK + +
Sbjct: 21 VLDAPIISDAEYDRLMRELKELEEKH---PELKTPDSPTQRVGGKPLEGF 67
>gnl|CDD|239762 cd04095, CysN_NoDQ_III, TCysN_NoDQ_II: This subfamily represents
the domain II of the large subunit of ATP sulfurylase
(ATPS): CysN or the N-terminal portion of NodQ, found
mainly in proteobacteria and homologous to the domain
II of EF-Tu. Escherichia coli ATPS consists of CysN and
a smaller subunit CysD and CysN. ATPS produces
adenosine-5'-phosphosulfate (APS) from ATP and sulfate,
coupled with GTP hydrolysis. In the subsequent reaction
APS is phosphorylated by an APS kinase (CysC), to
produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS)
for use in amino acid (aa) biosynthesis. The
Rhizobiaceae group (alpha-proteobacteria) appears to
carry out the same chemistry for the sufation of a
nodulation factor. In Rhizobium meliloti, a the
hererodimeric complex comprised of NodP and NodQ
appears to possess both ATPS and APS kinase activities.
The N and C termini of NodQ correspond to CysN and
CysC, respectively. Other eubacteria, Archaea, and
eukaryotes use a different ATP sulfurylase, which shows
no aa sequence similarity to CysN or NodQ. CysN and
the N-terminal portion of NodQ show similarity to
GTPases involved in translation, in particular, EF-Tu
and EF-1alpha.
Length = 103
Score = 25.9 bits (58), Expect = 1.6
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 2 GGMVFVDGLSNATGA 16
G + +D L+NAT
Sbjct: 85 GSFILIDRLTNATVG 99
>gnl|CDD|200473 cd11334, AmyAc_TreS, Alpha amylase catalytic domain found in
Trehalose synthetase. Trehalose synthetase (TreS)
catalyzes the reversible interconversion of trehalose
and maltose. The enzyme catalyzes the reaction in both
directions, but the preferred substrate is maltose.
Glucose is formed as a by-product of this reaction. It
is believed that the catalytic mechanism may involve the
cutting of the incoming disaccharide and transfer of a
glucose to an enzyme-bound glucose. This enzyme also
catalyzes production of a glucosamine disaccharide from
maltose and glucosamine. The Alpha-amylase family
comprises the largest family of glycoside hydrolases
(GH), with the majority of enzymes acting on starch,
glycogen, and related oligo- and polysaccharides. These
proteins catalyze the transformation of alpha-1,4 and
alpha-1,6 glucosidic linkages with retention of the
anomeric center. The protein is described as having 3
domains: A, B, C. A is a (beta/alpha) 8-barrel; B is a
loop between the beta 3 strand and alpha 3 helix of A; C
is the C-terminal extension characterized by a Greek
key. The majority of the enzymes have an active site
cleft found between domains A and B where a triad of
catalytic residues (Asp, Glu and Asp) performs
catalysis. Other members of this family have lost the
catalytic activity as in the case of the human 4F2hc, or
only have 2 residues that serve as the catalytic
nucleophile and the acid/base, such as Thermus A4
beta-galactosidase with 2 Glu residues (GH42) and human
alpha-galactosidase with 2 Asp residues (GH31). The
family members are quite extensive and include: alpha
amylase, maltosyltransferase, cyclodextrin
glycotransferase, maltogenic amylase, neopullulanase,
isoamylase, 1,4-alpha-D-glucan maltotetrahydrolase,
4-alpha-glucotransferase, oligo-1,6-glucosidase,
amylosucrase, sucrose phosphorylase, and amylomaltase.
Length = 447
Score = 26.4 bits (59), Expect = 2.0
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 24 ASEDA-PIVKILREAGAIP 41
A EDA PI+ LR+ IP
Sbjct: 273 AREDAFPIIDALRQTPPIP 291
>gnl|CDD|130567 TIGR01503, MthylAspMut_E, methylaspartate mutase, E subunit. This
model represents the E (epsilon) subunit of
methylaspartate mutase (glutamate mutase), a
cobalamin-dependent enzyme that catalyzes the first step
in a pathway of glutamate fermentation [Energy
metabolism, Amino acids and amines, Energy metabolism,
Fermentation].
Length = 480
Score = 25.9 bits (57), Expect = 3.1
Identities = 18/71 (25%), Positives = 26/71 (36%), Gaps = 5/71 (7%)
Query: 1 MGGMVFVDGLSNATGALKLKGRKASEDAP---IVKILREAGAIPLCNTNVPELCTSWETT 57
MGG F + S A G + A+ IVK EA IP N L + +
Sbjct: 292 MGG--FPEDESKAFGVISTATTIAALSGATKVIVKSPHEAIGIPTAEANAAGLKATKQAL 349
Query: 58 NYITGKTVNPY 68
N + + +
Sbjct: 350 NMLNEQKIPMS 360
>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit.
Length = 485
Score = 25.7 bits (57), Expect = 3.2
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 21 GRKASEDAPIVKILREAGAI 40
G+KAS A +V L+E GA+
Sbjct: 178 GQKASSVAQVVTTLQERGAM 197
>gnl|CDD|235349 PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.
Length = 474
Score = 25.6 bits (57), Expect = 3.7
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 2 GGMVFVDGLSNAT 14
GG +F+D L+N T
Sbjct: 416 GGFIFIDRLTNVT 428
>gnl|CDD|225448 COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1
[Inorganic ion transport and metabolism].
Length = 431
Score = 25.3 bits (56), Expect = 3.9
Identities = 9/42 (21%), Positives = 15/42 (35%), Gaps = 10/42 (23%)
Query: 1 MGGMVFVDGLSNATGALKLKGRKASEDAPIVKILREAGAIPL 42
G + +D L+N T + I+ L IP+
Sbjct: 393 TGSFILIDRLTNGTVGAGM----------ILASLSANTGIPV 424
>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy
production and conversion].
Length = 504
Score = 25.2 bits (56), Expect = 5.1
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 21 GRKASEDAPIVKILREAGA 39
G+K S A +V+ L E GA
Sbjct: 199 GQKRSTVANVVRTLEEHGA 217
>gnl|CDD|200569 cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of
Streptococcus mutans polysaccharide deacetylase PgdA,
Bacillus subtilis YheN, and similar proteins. This
family is represented by a putative polysaccharide
deacetylase PgdA from the oral pathogen Streptococcus
mutans (SmPgdA) and Bacillus subtilis YheN (BsYheN),
which are members of the carbohydrate esterase 4 (CE4)
superfamily. SmPgdA is an extracellular metal-dependent
polysaccharide deacetylase with a typical CE4 fold, with
metal bound to a His-His-Asp triad. It possesses
de-N-acetylase activity toward a hexamer of
chitooligosaccharide N-acetylglucosamine, but not
shorter chitooligosaccharides or a synthetic
peptidoglycan tetrasaccharide. SmPgdA plays a role in
tuning cell surface properties and in interactions with
(salivary) agglutinin, an essential component of the
innate immune system, most likely through deacetylation
of an as-yet-unidentified polysaccharide. SmPgdA shows
significant homology to the catalytic domains of
peptidoglycan deacetylases from Streptococcus pneumoniae
(SpPgdA) and Listeria monocytogenes (LmPgdA), both of
which are involved in the bacterial defense mechanism
against human mucosal lysozyme. The Bacillus subtilis
genome contains six polysaccharide deacetylase gene
homologs: pdaA, pdaB (previously known as ybaN), yheN,
yjeA, yxkH and ylxY. The biological function of BsYheN
is still unknown. This family also includes many
uncharacterized polysaccharide deacetylases mainly found
in bacteria.
Length = 189
Score = 24.8 bits (55), Expect = 5.9
Identities = 10/25 (40%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 60 ITGKTVNPYDFSRTPGGSSGGEVLK 84
ITG R PGGSS ++K
Sbjct: 88 ITGVKTK---LIRFPGGSSNTGLMK 109
>gnl|CDD|215833 pfam00274, Glycolytic, Fructose-bisphosphate aldolase class-I.
Length = 348
Score = 24.9 bits (55), Expect = 6.1
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 23 KASEDAPIVKILREAGAIP 41
K + P V +L+E G +P
Sbjct: 72 KTDDGKPFVDLLKEKGIVP 90
>gnl|CDD|223112 COG0034, PurF, Glutamine phosphoribosylpyrophosphate
amidotransferase [Nucleotide transport and metabolism].
Length = 470
Score = 24.9 bits (55), Expect = 6.2
Identities = 8/10 (80%), Positives = 10/10 (100%)
Query: 30 IVKILREAGA 39
IV++LREAGA
Sbjct: 367 IVQMLREAGA 376
>gnl|CDD|227074 COG4731, COG4731, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 162
Score = 24.3 bits (53), Expect = 7.9
Identities = 17/87 (19%), Positives = 25/87 (28%), Gaps = 7/87 (8%)
Query: 2 GGMVFVDGLSNATGALKLKG----RKASEDAPIVKILREAGAIPLCNTNVPELCTSWETT 57
+ L A A +V + + +C TN +
Sbjct: 39 AAVGIAQALGAAAAAPAWAADDIVGNWKTKGGLVVVEIKPCGKKVCATNAT--LKPGKAD 96
Query: 58 NYITGKTVNPYDFSRTPGGSSGGEVLK 84
N GKTV D S + G G+V
Sbjct: 97 NSYKGKTVI-GDLSGSGDGEWTGKVYD 122
>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain.
The F-ATPase is found in bacterial plasma membranes,
mitochondrial inner membranes and in chloroplast
thylakoid membranes. It has also been found in the
archaea Methanosarcina barkeri. It uses a proton
gradient to drive ATP synthesis and hydrolyzes ATP to
build the proton gradient. The extrinisic membrane
domain, F1, is composed of alpha, beta, gamma, delta and
epsilon subunits with a stoichiometry of 3:3:1:1:1. The
alpha subunit of the F1 ATP synthase can bind
nucleotides, but is non-catalytic.
Length = 274
Score = 24.5 bits (54), Expect = 8.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 21 GRKASEDAPIVKILREAGA 39
G+KAS A +VK L E GA
Sbjct: 106 GQKASTVAQVVKTLEEHGA 124
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
0.313 0.133 0.397
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,263,787
Number of extensions: 320802
Number of successful extensions: 257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 243
Number of HSP's successfully gapped: 52
Length of query: 84
Length of database: 10,937,602
Length adjustment: 52
Effective length of query: 32
Effective length of database: 8,631,194
Effective search space: 276198208
Effective search space used: 276198208
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)