RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022256
(300 letters)
>gnl|CDD|216494 pfam01425, Amidase, Amidase.
Length = 431
Score = 170 bits (432), Expect = 8e-50
Identities = 80/301 (26%), Positives = 121/301 (40%), Gaps = 55/301 (18%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+VP AIG++T GS+ P A CG+ L+PT+G V R GV+ S SLD +GP R+ D +
Sbjct: 142 LVPLAIGTDTGGSIRIPAAFCGLVGLKPTYGRVSRYGVVPYSSSLDHVGPLARTVEDAAL 201
Query: 61 VLDAIQGKDPDDLSSRD---FPFADPFSVDITKLTVGY------------LEDAEMEVVQ 105
+LD I G DP D +S FA+P + L +G ++ A +
Sbjct: 202 LLDVIAGYDPADPTSAPSPVPDFAEPLKKSLKGLRIGVPREDFYFSLDPEVQRAVRKAAA 261
Query: 106 VLAEKGIKMVPFKLNYTVDSVQGILNFTMDVDM---LAHFDEWQRSGKDDVYEAQDQWPV 162
L G ++V + ++ + + L+ DE +D++ + + +
Sbjct: 262 ALEALGHEVVEVEPPSLKHALP-LYYIIAPAEASSNLSDLDELYPRIRDELLGDEVKRRI 320
Query: 163 EL---RRSRIITAVDYMQAQRARGKLIREVKESF-IVDAFIGNVTDWEKVCLG------- 211
EL S + Y++AQ+ R L RE F +D + T LG
Sbjct: 321 ELGAYALSAGYSGAYYLKAQKVRRLLRREFAGLFEELDVLLSPTTPTPAPRLGEAADSPT 380
Query: 212 ---------------NLVGLPVIVVPAGFKNISNPPPSGSRRRTTITTGIYAPPKHDHIA 256
NL GLP I +PAGF S + I PP D
Sbjct: 381 VLYNLLDFTANTVPANLAGLPAISLPAGF----------SEDGLPVGLQIIGPPGDDETL 430
Query: 257 L 257
L
Sbjct: 431 L 431
>gnl|CDD|223232 COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit
and related amidases [Translation, ribosomal structure
and biogenesis].
Length = 475
Score = 123 bits (311), Expect = 4e-32
Identities = 82/325 (25%), Positives = 121/325 (37%), Gaps = 68/325 (20%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+VP A+GS+T GS+ P A CG+ L+PT+G V R GV+ ++ SLD++GP R+ D +
Sbjct: 169 LVPLALGSDTGGSIRIPAAFCGLVGLKPTYGRVSRYGVVPLASSLDQIGPLARTVRDAAL 228
Query: 61 VLDAIQGKDPDDLSSRDFPFADPFSV--DITKLTVGYLEDAEM-------------EVVQ 105
+LD I G DP D P P D+ L +G ++ V+
Sbjct: 229 LLDVIAGPDPRDSPLPPPPPVPPALAGKDLKGLRIGVPKELGGGGPLDPDVRAAFEAAVK 288
Query: 106 VLAEKGIKMVPFKLNYTVDSVQGILNFTMDVDMLAHFD----EWQRSGKDDVYEAQDQWP 161
L G ++V V ++ + LA FD + + A+ P
Sbjct: 289 ALEAAGAEVVE------VSLPLLSDDYALAAYYLARFDGERYGLRAADLYGKTRAEGFGP 342
Query: 162 VELRRSRI---ITAVDYMQAQRARG---KLIREVKESF-IVDAFIGNVT-------DWEK 207
RR + + + Y A R + R + F VD + T +
Sbjct: 343 EVKRRIMLGTYLLSAGYYDAYYRRAQKTLIRRAFDKLFEEVDVLLTPTTPTPAPKIGESE 402
Query: 208 V---------------CLGNLVGLPVIVVPAGFKNISNPPPSGSRRRTTITTG--IYAPP 250
NL GLP I VPAGF P G + P
Sbjct: 403 SDGDDPLEMYLLDVFTVPANLAGLPAISVPAGFTADGLP------------VGLQLIGPA 450
Query: 251 KHDHIALALAIAYQSVTDHHKQRPP 275
D L LA A + H++ PP
Sbjct: 451 FDDATLLRLAAALEQALGWHRRPPP 475
>gnl|CDD|234572 PRK00012, gatA, aspartyl/glutamyl-tRNA amidotransferase subunit A;
Reviewed.
Length = 459
Score = 100 bits (251), Expect = 7e-24
Identities = 86/287 (29%), Positives = 136/287 (47%), Gaps = 65/287 (22%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+ P A+GS+T GS+ P A CGV L+PT+G V R G+++ + SLD++GPF R+ D +
Sbjct: 151 LAPAALGSDTGGSIRQPAAFCGVVGLKPTYGRVSRYGLIAFASSLDQIGPFARTVEDAAL 210
Query: 61 VLDAIQGKDPDDLSSRDFP---FADPFSVDITKLTVGYLE-------DAEM-----EVVQ 105
+L+AI G DP D +S D P + DI L +G + D E+ ++
Sbjct: 211 LLNAIAGHDPKDSTSADVPVPDYTAALGKDIKGLKIGVPKEYFGEGLDPEVKEAVEAAIK 270
Query: 106 VLAEKGIKMVPFKLNYTVDSVQG--ILNFTMDVDMLAHFDE---WQRSGK----DDVYEA 156
L + G ++V L +T ++ I+ LA +D R+ +++YE
Sbjct: 271 KLEDLGAEIVEVSLPHTKYALPAYYIIAPAEASSNLARYDGVRYGYRAEDAKDLEEMYEK 330
Query: 157 Q------DQWPVELRRSRII--TAV------D--YMQAQRARGKLIREVKESF-IVD--- 196
+ E++R RI+ T V D Y++AQ+ R + ++ +++F VD
Sbjct: 331 TRSEGFGE----EVKR-RIMLGTYVLSAGYYDAYYLKAQKVRTLIKQDFEKAFEKVDVIL 385
Query: 197 -------AF-IGNVTD------WEKVC--LGNLVGLPVIVVPAGFKN 227
AF IG TD + NL GLP I VPAGF +
Sbjct: 386 GPTAPTTAFKIGEKTDDPLAMYLSDIFTVPANLAGLPAISVPAGFDD 432
>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 = 98.2 bits (245), Expect = 4e-23
Identities = 80/321 (24%), Positives = 134/321 (41%), Gaps = 68/321 (21%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+ PF++GS+T GS+ P + CGV +PT+G V R G+++ + SLD++GPF R+ D +
Sbjct: 151 LAPFSLGSDTGGSIRQPASFCGVVGFKPTYGRVSRYGLVAYASSLDQIGPFARTVEDIAL 210
Query: 61 VLDAIQGKDPDDLSSRDFPFADPFSV---DITKLTVGYLEDAEMEV-----------VQV 106
+LD I G D D +S P + F D+ L VG +++ E+ ++V
Sbjct: 211 LLDVISGHDKRDSTSAKVPDPEFFEELKKDLKGLKVGVVKEFSEEMDKEVQEKFENALEV 270
Query: 107 LAEKGIKMVPFKLNYT--VDSVQGILNFTMDVDMLAHFDEW---QRSGKDDVYE------ 155
L E G ++V + + I++ + LA +D R + + +
Sbjct: 271 LEELGAEIVEVSFPHVKYALPIYYIISPSEASSNLARYDGIRYGYRIEEPNSLKELYAKT 330
Query: 156 -AQDQWPVELRRSRIIT---AVD-------YMQAQRARGKLIREVKESFI-VDAFIGNVT 203
A+ E++R RI+ A+ Y++AQ+ R +I + + F VD +
Sbjct: 331 RAEGFGE-EVKR-RIMLGNYALSAGYYDKYYLKAQKVRTLIIDDFLKLFEEVDVIVSPTA 388
Query: 204 DWEKVCLG-------------------NLVGLPVIVVPAGFKNISNPPPSGSRRRTTITT 244
+G NL GLP I VP G K P I
Sbjct: 389 PTLPFKIGEKLDDPLEMYLSDILTVPANLAGLPAISVPCGVKEKGLP----------IGL 438
Query: 245 GIYAPPKHDHIALALAIAYQS 265
I D L ++ A++
Sbjct: 439 QIIGKCFDDKTLLQVSYAFEQ 459
>gnl|CDD|236409 PRK09201, PRK09201, amidase; Provisional.
Length = 465
Score = 88.1 bits (219), Expect = 1e-19
Identities = 34/72 (47%), Positives = 46/72 (63%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+VPF +GS+T GS+ P + CG+ L+PT+G + R G SLD +GPF RS AD +
Sbjct: 168 LVPFTLGSDTNGSIRVPASLCGIFGLKPTYGRLSRAGSFPFVASLDHIGPFARSVADLAL 227
Query: 61 VLDAIQGKDPDD 72
V D +QG DP D
Sbjct: 228 VYDVLQGPDPQD 239
>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 = 85.6 bits (212), Expect = 1e-18
Identities = 38/101 (37%), Positives = 52/101 (51%), Gaps = 3/101 (2%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+VPF++GS+T GS+ P + CGV L+PT+G + R GV SLD +GPF RS D +
Sbjct: 161 LVPFSLGSDTNGSIRVPASLCGVFGLKPTYGRLSRQGVFPFVASLDHVGPFARSVEDLAL 220
Query: 61 VLDAIQGKDPDD---LSSRDFPFADPFSVDITKLTVGYLED 98
D +QG DP D P I+ L + L
Sbjct: 221 AYDVMQGPDPQDPFCTDRPAEPTVPLLPAGISGLRIAVLGG 261
>gnl|CDD|236161 PRK08137, PRK08137, amidase; Provisional.
Length = 497
Score = 81.0 bits (200), Expect = 4e-17
Identities = 36/79 (45%), Positives = 46/79 (58%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+ AIG+ET GS+T P A G+ L+PT G V R G++ IS S D GP R+ AD
Sbjct: 174 LAAVAIGTETDGSITCPAAINGLVGLKPTVGLVSRDGIVPISHSQDTAGPMTRTVADAAA 233
Query: 61 VLDAIQGKDPDDLSSRDFP 79
VL AI G DP D ++ P
Sbjct: 234 VLTAIAGGDPADPATASAP 252
>gnl|CDD|235979 PRK07235, PRK07235, amidase; Provisional.
Length = 502
Score = 71.6 bits (176), Expect = 6e-14
Identities = 29/84 (34%), Positives = 43/84 (51%)
Query: 2 VPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIV 61
V AIG + GS+ P A CG+ ++PT G V TG I ++D LGP + D ++
Sbjct: 184 VDMAIGGDQGGSIRIPSAWCGIYGMKPTHGLVPYTGAFPIERTIDHLGPMTATVRDNALL 243
Query: 62 LDAIQGKDPDDLSSRDFPFADPFS 85
L+ I G+D D P D ++
Sbjct: 244 LEVIAGRDGLDPRQPAQPPVDDYT 267
>gnl|CDD|235698 PRK06102, PRK06102, hypothetical protein; Provisional.
Length = 452
Score = 67.8 bits (166), Expect = 9e-13
Identities = 36/108 (33%), Positives = 52/108 (48%), Gaps = 7/108 (6%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+VP A+G++T GS+ P A G+ + T G GV +++SLD LGP CRS D
Sbjct: 168 LVPVAMGTDTGGSVRIPAAFNGLVGYKATRGRYSMDGVFPLAKSLDSLGPLCRSVRDAVW 227
Query: 61 VLDAIQGKDPDDLSSRDFPFAD-PFSVDITKLTVGYLEDAEMEVVQVL 107
+ A++G D+ R P A V T + +DAE V
Sbjct: 228 IDAAMRGLTAPDVVRR--PLAGLRLVVPETVV----FDDAEPGVRAAF 269
>gnl|CDD|236030 PRK07488, PRK07488, indole acetimide hydrolase; Validated.
Length = 472
Score = 66.9 bits (164), Expect = 2e-12
Identities = 29/65 (44%), Positives = 39/65 (60%), Gaps = 1/65 (1%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+ P +G++T GS+ P A CGV LRPT G GV+ IS + D +GP RS AD +
Sbjct: 169 LAPAGLGTDTGGSVRIPAALCGVVGLRPTVGRYSGDGVVPISHTRDTVGPIARSVADLAL 228
Query: 61 VLDAI 65
LDA+
Sbjct: 229 -LDAV 232
>gnl|CDD|235855 PRK06707, PRK06707, amidase; Provisional.
Length = 536
Score = 66.5 bits (162), Expect = 3e-12
Identities = 39/118 (33%), Positives = 63/118 (53%), Gaps = 11/118 (9%)
Query: 3 PFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVL 62
P A+G+ET GS+ P A+ V LRP+ G V RTG++ ++E+LD GP R+ D +
Sbjct: 241 PLAVGTETTGSIVAPAAQQSVVGLRPSLGMVSRTGIIPLAETLDTAGPMARTVKDAATLF 300
Query: 63 DAIQGKDPDDL---SSRDFPFADPFSVDITKLT-----VGYLE--DAEMEVVQVLAEK 110
+A+ G D D+ +D D ++ D++ +G L D + E + +AEK
Sbjct: 301 NAMIGYDEKDVMTEKVKDKERID-YTKDLSIDGLKGKKIGLLFSVDQQDENRKAVAEK 357
>gnl|CDD|236028 PRK07486, PRK07486, amidase; Provisional.
Length = 484
Score = 65.4 bits (160), Expect = 6e-12
Identities = 84/327 (25%), Positives = 120/327 (36%), Gaps = 72/327 (22%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGR-TGVMSISESLDKLGPFCRSAADCT 59
M+P A GS+ GS+ P A V RP+ G V G + L GP R+ D
Sbjct: 173 MLPVADGSDMMGSLRNPAAFNNVYGFRPSQGRVPHGPGGDVFVQQLGTEGPMGRTVEDVA 232
Query: 60 IVLDAIQGKDPDD-LSSRDFP--FADPFSVDITKLTVGYLED----AEMEV-VQVLAEKG 111
++L G DP D LS + P FA P D+ + +L D ME V L E
Sbjct: 233 LLLAVQAGYDPRDPLSLAEDPARFAQPLEADLRGKRIAWLGDWGGYLPMEAGVLELCEAA 292
Query: 112 IKMVPFKLNYTVDSVQGILN-------------FTMDVDMLAHFDEWQRSGKDDVYEAQD 158
+ + +L V++ F + +LA + + R + + +
Sbjct: 293 LATLR-ELGCDVEAALPAFPPERLWRAWLTLRHFLVGGSLLALYRDPARRA---LLKPEA 348
Query: 159 QWPVELRRSRIITAVDYMQAQRARG---KLIREVKESFIVDAFI---------------- 199
W +E +TA +A R + + + E + D
Sbjct: 349 IWEIE--GGLALTAAQVYEASVIRSAWYQALLRLFERY--DFLALPTAQVFPFDAEWRWP 404
Query: 200 ----GNVTD----W-EKVCLGNLVGLPVIVVPAGFKNISNPP--PSGSRRRTTITTGIYA 248
G D W E V L GLP I VP GF N P G + I
Sbjct: 405 RAIAGRAMDTYHRWMEVVVPATLAGLPAISVPVGF----NAAGLPMGMQ--------IIG 452
Query: 249 PPKHDHIALALAIAYQSVTDHHKQRPP 275
PP+ D L LA AY+ TD ++RPP
Sbjct: 453 PPRADLAVLQLAHAYEQATDWVQRRPP 479
>gnl|CDD|180715 PRK06828, PRK06828, amidase; Provisional.
Length = 491
Score = 65.2 bits (159), Expect = 8e-12
Identities = 24/68 (35%), Positives = 39/68 (57%)
Query: 5 AIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVLDA 64
++G+ET GS+ P + V ++PT G + R G++ + S D GPF R+ D I+L +
Sbjct: 188 SVGTETDGSILSPAVQNSVVGIKPTVGLISRRGIIPFTYSQDTAGPFARTVTDAAILLGS 247
Query: 65 IQGKDPDD 72
+ G D D
Sbjct: 248 LTGVDEKD 255
>gnl|CDD|235945 PRK07139, PRK07139, amidase; Provisional.
Length = 439
Score = 65.1 bits (159), Expect = 8e-12
Identities = 36/144 (25%), Positives = 69/144 (47%), Gaps = 12/144 (8%)
Query: 2 VPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIV 61
+ FAIGS+T S+ P + G +P++G + R G+ + + SLD + F + D I+
Sbjct: 132 ISFAIGSDTGDSVRLPASFIGKVGFKPSYGAISRYGLFAYASSLDTVAYFTHNVNDAIIL 191
Query: 62 LDAIQGKDPDDLSSRDFPFAD-----PFSV---DITKLTVGYLEDAEMEVVQVLAEKGIK 113
+ GKD +DL+S D + P V D K Y+ +++ +L + I+
Sbjct: 192 SKVLFGKDENDLTSVDVKINNVKKTKPKKVAYLDCFKELEEYVAKKYKKLINILKSENIE 251
Query: 114 MVPFKLNY----TVDSVQGILNFT 133
+ K++ + V I++++
Sbjct: 252 VEKIKIDEKLLKAIKPVYKIISYS 275
>gnl|CDD|180437 PRK06169, PRK06169, putative amidase; Provisional.
Length = 466
Score = 61.2 bits (149), Expect = 1e-10
Identities = 77/319 (24%), Positives = 115/319 (36%), Gaps = 64/319 (20%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
M P ++G++ GS+ P + CG +PTFG V S +L +GP R+ AD +
Sbjct: 168 MGPLSVGTDGGGSVRIPASFCGTFGFKPTFGRVPLYP-ASPFGTLAHVGPMTRTVADAAL 226
Query: 61 VLDAIQGKDPDD---LSSRDFPFADPFSVDITKL------TVGYLE-DAEME-----VVQ 105
+LD I D D L F D D+ L T+GY++ D E+ VQ
Sbjct: 227 LLDVIARPDARDWSALPPPTTSFLDALDRDVRGLRIAYSPTLGYVDVDPEVAALVAQAVQ 286
Query: 106 VLAEKGIKMVPFKLNYTVDSVQ--GILNFTMDVDMLAHFDEWQRSGKDDVYEAQDQWPVE 163
LA G ++ ++ D V+ +L F +L QR+ D P
Sbjct: 287 RLAALGARVEEVDPGFS-DPVEAFHVLWFAGAARLLRALPPGQRALLD---------PGL 336
Query: 164 LR---RSRIITAVDYMQAQRARGKL---IREVKESFIV-------------------DAF 198
R R +A DY+ A R L + E + + +
Sbjct: 337 RRIAERGATYSASDYLDATAVRAALGARMGAFHERYDLLLTPTLPIPAFEAGHDVPPGSG 396
Query: 199 IGNVTDWEKVCLG-NLVGLPVIVVPAGFKNISNPPPSGSRRRTTITTGIYAPPKHDHIAL 257
+ + T W NL P VP GF + P G + I P D + L
Sbjct: 397 LTDWTQWTPFTYPFNLTQQPAASVPCGFT--AAGLPVGLQ--------IVGPRHSDDLVL 446
Query: 258 ALAIAYQSVTDHHKQRPPI 276
+A AY+ P
Sbjct: 447 RVARAYEQALPWPHGAPAA 465
>gnl|CDD|235921 PRK07056, PRK07056, amidase; Provisional.
Length = 454
Score = 58.8 bits (143), Expect = 9e-10
Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 5 AIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVLDA 64
A+G++T GS+ P A CG+T +PT V G + +S +LD +GP RS A C ++DA
Sbjct: 176 ALGTDTGGSIRIPAALCGLTGFKPTARRVPLQGAVPLSTTLDSIGPLARSVACC-ALVDA 234
Query: 65 I-QGKDPDDLSSRD 77
+ G++P ++R
Sbjct: 235 VLAGEEPVVPAARP 248
>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 = 58.9 bits (143), Expect = 1e-09
Identities = 37/101 (36%), Positives = 47/101 (46%), Gaps = 1/101 (0%)
Query: 2 VPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIV 61
VPFA+G++TAGS P A + L+PT G V TGV+ SLD + F + AD V
Sbjct: 127 VPFALGTDTAGSGRVPAALNNIVGLKPTKGLVSTTGVVPACRSLDCVSIFALTVADAEQV 186
Query: 62 LDAIQGKDPDDLSSRDFPFADPFSVDITKLTVGYLEDAEME 102
L D D SR P A VG A++E
Sbjct: 187 LRIAAAPDARDPYSRPLPAAALRRFP-PPPRVGVPRAAQLE 226
>gnl|CDD|181375 PRK08310, PRK08310, amidase; Provisional.
Length = 395
Score = 57.7 bits (140), Expect = 2e-09
Identities = 26/75 (34%), Positives = 39/75 (52%)
Query: 2 VPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIV 61
FA+G++T GS+ P + CG+ LRPT G + GVM ++ S D +G F R A V
Sbjct: 124 ADFALGTDTGGSVRAPASFCGLYGLRPTHGRISLEGVMPLAPSFDTVGWFARDIALLERV 183
Query: 62 LDAIQGKDPDDLSSR 76
+ + G D +
Sbjct: 184 GEVLLGDDAQEFPLT 198
>gnl|CDD|168315 PRK05962, PRK05962, amidase; Validated.
Length = 424
Score = 57.5 bits (139), Expect = 2e-09
Identities = 52/212 (24%), Positives = 79/212 (37%), Gaps = 49/212 (23%)
Query: 5 AIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVLDA 64
AIGS+T GS+ P A G+ +PT + G +S SLD +GP R+ ADC
Sbjct: 146 AIGSDTGGSVRIPAALNGLVGFKPTARRIPLEGAFPLSPSLDSIGPLARTVADCAAADAV 205
Query: 65 IQGKDPDDLSSRDFPFADPFSVDITKLTV--GYL-EDAEMEV-------VQVLAEKGIKM 114
+ G+ P L + V ++ + GYL D E +V + L + G ++
Sbjct: 206 MAGEKPIPL--------EVLPVAGLRIGLPKGYLLADMEPDVAAAFEASLAALEKAGARI 257
Query: 115 VPFKLNYTVDSVQGILNFTMDVDMLAHFDEWQRSGKDDVYEA---------QDQWPVE-- 163
+ +D D++A E R G EA V+
Sbjct: 258 A----DLAID------------DLIARLAEATRIGSIAGIEASHIHADWLADLDANVDIR 301
Query: 164 ----LRRSRIITAVDYMQAQRARGKLIREVKE 191
L R + Y + R R L R + E
Sbjct: 302 VKRPLSRRIKVPLEAYHRLMRTRAALARAMDE 333
>gnl|CDD|236177 PRK08186, PRK08186, allophanate hydrolase; Provisional.
Length = 600
Score = 55.6 bits (135), Expect = 9e-09
Identities = 30/84 (35%), Positives = 42/84 (50%)
Query: 2 VPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIV 61
V FA+G++TAGS P A + L+PT G + GV+ +LD + F + D V
Sbjct: 164 VSFALGTDTAGSGRVPAAFNNIVGLKPTLGLLSTRGVVPACRTLDCVSVFALTVDDADAV 223
Query: 62 LDAIQGKDPDDLSSRDFPFADPFS 85
L + G DP D SR P P +
Sbjct: 224 LAVMAGFDPADPYSRANPADAPAA 247
Score = 27.5 bits (62), Expect = 9.7
Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 10/82 (12%)
Query: 212 NLVGLPVIVVPAGFKNISNPPPSGSRRRTTITTGIYAPPKHDHIALALAIAYQSVTDHHK 271
NL+ L + VPAGF+ ++ P G +T + AP D LA Q+
Sbjct: 403 NLLDLCALAVPAGFR--ADGLPFG------VT--LIAPAFADQALADLAARLQAALALPL 452
Query: 272 QRPPIDNLGPNDIIPDPPTVTI 293
P P + P V +
Sbjct: 453 GGGPAPPAPPPPLPAGPDRVRL 474
>gnl|CDD|235723 PRK06170, PRK06170, amidase; Provisional.
Length = 490
Score = 54.7 bits (132), Expect = 2e-08
Identities = 28/78 (35%), Positives = 36/78 (46%), Gaps = 7/78 (8%)
Query: 3 PFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISE-------SLDKLGPFCRSA 55
+IGS+ GS+ P CGV A +PT G V G + L GP RSA
Sbjct: 173 ALSIGSDIGGSLRVPAHYCGVYAHKPTLGLVPLRGHIPPPAPALPGQADLAVAGPMARSA 232
Query: 56 ADCTIVLDAIQGKDPDDL 73
D ++LD + G DP D
Sbjct: 233 RDLALLLDVMAGPDPLDG 250
>gnl|CDD|166363 PLN02722, PLN02722, indole-3-acetamide amidohydrolase.
Length = 422
Score = 51.4 bits (123), Expect = 2e-07
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAA 56
+V F++G++T GS+ P + CG+ RP+ G V GV+ +++S D +G F R
Sbjct: 124 LVDFSLGTDTGGSVRVPASYCGIFGFRPSHGAVSTVGVIPMAQSFDTVGWFARDPV 179
>gnl|CDD|236029 PRK07487, PRK07487, amidase; Provisional.
Length = 469
Score = 50.0 bits (120), Expect = 6e-07
Identities = 28/83 (33%), Positives = 37/83 (44%), Gaps = 17/83 (20%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVG--------RT---GVMSISESLDKLG 49
+ A G++ GS+ YP CGV LRPT G V R +MS+ G
Sbjct: 168 IGAIAHGTDIGGSIRYPAYACGVHGLRPTLGRVPAYNASSPERPIGAQLMSVQ------G 221
Query: 50 PFCRSAADCTIVLDAIQGKDPDD 72
P R+ AD + L A+ DP D
Sbjct: 222 PLARTVADLRLALAAMAAPDPRD 244
>gnl|CDD|171524 PRK12470, PRK12470, amidase; Provisional.
Length = 462
Score = 45.3 bits (107), Expect = 3e-05
Identities = 20/65 (30%), Positives = 30/65 (46%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTI 60
+ P A+GS+ GS+ P CG+ L+P + + L GP RS D +
Sbjct: 167 LAPVALGSDGGGSIRIPSTWCGLFGLKPQRDRISLEPHDGAWQGLSVNGPIARSVMDAAL 226
Query: 61 VLDAI 65
+LDA
Sbjct: 227 LLDAT 231
>gnl|CDD|235686 PRK06061, PRK06061, amidase; Provisional.
Length = 483
Score = 43.9 bits (104), Expect = 7e-05
Identities = 26/76 (34%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 1 MVPFAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKL---GPFCRSAAD 57
+V AIGS+ AGS+ P A + ++P GR + E+ + L GP R+ AD
Sbjct: 176 LVTAAIGSDGAGSVRIPAAWTHLVGIKP---QRGRISTWPLPEAFNGLTVNGPLARTVAD 232
Query: 58 CTIVLDAIQGKDPDDL 73
++LDA G P D
Sbjct: 233 AALLLDAASGNHPGDR 248
>gnl|CDD|235915 PRK07042, PRK07042, amidase; Provisional.
Length = 464
Score = 42.3 bits (100), Expect = 2e-04
Identities = 36/163 (22%), Positives = 60/163 (36%), Gaps = 45/163 (27%)
Query: 3 PFAIGSETAGSMTYPGARCGVTALRPTFGTV-------GRTGVMSISESLDKLGPFCRSA 55
P +G++ GS+ P CG+ L+P+ G + GR GP R+
Sbjct: 169 PLHLGTDIGGSVRLPAGWCGIVGLKPSLGRIPIDPPYTGRC-----------AGPMTRTV 217
Query: 56 ADCTIVLDAIQGKDPDDLSSR---DFPFADPFSVDITKLTVGYLEDA------EMEVV-- 104
D +++ + D D +S D ++D +D+ L +G + DA + EV
Sbjct: 218 DDAALLMSVLSRPDARDGTSLPPQDIDWSD-LDIDVRGLRIGLMLDAGCGLAVDPEVRAA 276
Query: 105 -----QVLAEKGIKMVPFKLNYTVDSVQGILNFTMDVDMLAHF 142
+ G V+ V L M +D L F
Sbjct: 277 VEAAARRFEAAGA---------IVEPVPPFLTRAM-LDGLDRF 309
>gnl|CDD|183377 PRK11910, PRK11910, amidase; Provisional.
Length = 615
Score = 41.6 bits (97), Expect = 4e-04
Identities = 19/61 (31%), Positives = 31/61 (50%)
Query: 5 AIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVLDA 64
AIG+ET GS+ P + +P+ G V G++ +S D GP R+ D + +A
Sbjct: 334 AIGTETNGSIITPASAQSAVGYKPSQGLVNNKGIIPLSSRFDTPGPLTRTVNDAYLTTNA 393
Query: 65 I 65
+
Sbjct: 394 L 394
>gnl|CDD|180626 PRK06565, PRK06565, amidase; Validated.
Length = 566
Score = 34.0 bits (78), Expect = 0.098
Identities = 22/68 (32%), Positives = 34/68 (50%)
Query: 4 FAIGSETAGSMTYPGARCGVTALRPTFGTVGRTGVMSISESLDKLGPFCRSAADCTIVLD 63
F + ET S P + G+ A P+ G + G ++ ++D + P+ R+ AD VLD
Sbjct: 177 FGLAEETWSSGRGPASNNGLCAYTPSRGVISVRGNWPLTPTMDVVVPYARTMADLLEVLD 236
Query: 64 AIQGKDPD 71
I DPD
Sbjct: 237 VIVADDPD 244
>gnl|CDD|221372 pfam12005, DUF3499, Protein of unknown function (DUF3499). This
family of proteins is functionally uncharacterized. This
protein is found in bacteria. Proteins in this family
are typically between 125 to 163 amino acids in length.
Length = 125
Score = 28.6 bits (64), Expect = 1.8
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 248 APPKHDHIALALAIAYQSVTDHHKQRPPIDNLGPNDIIPDPPTVTIPPRILHL 300
A P D + +ALA A + H + PP +G P PP+ R HL
Sbjct: 70 AEPDEDDL-VALADAVREAARHAGEAPPPGPVGGG--HPAPPSSRSGGRRGHL 119
>gnl|CDD|100093 cd05800, PGM_like2, This PGM-like (phosphoglucomutase-like) protein
of unknown function belongs to the
alpha-D-phosphohexomutase superfamily and is found in
both archaea and bacteria. The
alpha-D-phosphohexomutases include several related
enzymes that catalyze a reversible intramolecular
phosphoryl transfer on their sugar substrates. Other
members of this superfamily include phosphoglucosamine
mutase (PNGM), phosphoacetylglucosamine mutase (PAGM),
the bacterial phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four structural domains (subdomains)
with a centrally located active site formed by four
loops, one from each subdomain. All four subdomains are
included in this alignment model.
Length = 461
Score = 29.4 bits (67), Expect = 2.5
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 12/48 (25%)
Query: 182 RGKLIREVKESFIVDAFIGNVTDWEKVCLGNLVGLPVIVVPAGFKNIS 229
RG +++ V + ++D + GLPV P GFK I+
Sbjct: 278 RGPVVKTVSTTHLIDR------------IAEKHGLPVYETPVGFKYIA 313
>gnl|CDD|130695 TIGR01634, tail_P2_I, phage tail protein, P2 protein I family.
This model represents the family of phage P2 protein I
and related tail proteins from a number of temperate
phage of Gram-negative bacteria. This model is built as
a fragment model and identifies some phage tail proteins
with strong but local similarity to members of the seed
alignment [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 139
Score = 28.3 bits (63), Expect = 2.6
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%)
Query: 160 WPVELRRSRIITAVDYMQAQRARGKL--IREVKESFIVDAFIGNVTDW 205
WP +++R I +A R +G + +R V E F I N+T+W
Sbjct: 56 WPEKVKRDVIRSA---YFIHRHKGTIGAVRRVVEPF---GGIVNITEW 97
>gnl|CDD|176209 cd08247, AST1_like, AST1 is a cytoplasmic protein associated with
the periplasmic membrane in yeast. This group contains
members identified in targeting of yeast membrane
proteins ATPase. AST1 is a cytoplasmic protein
associated with the periplasmic membrane in yeast,
identified as a multicopy suppressor of pma1 mutants
which cause temperature sensitive growth arrest due to
the inability of ATPase to target to the cell surface.
This family is homologous to the medium chain family of
dehydrogenases and reductases. 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.
Length = 352
Score = 28.8 bits (65), Expect = 3.2
Identities = 6/19 (31%), Positives = 14/19 (73%)
Query: 171 TAVDYMQAQRARGKLIREV 189
A + +++ RA+GK++ +V
Sbjct: 334 EAFERLKSNRAKGKVVIKV 352
>gnl|CDD|223681 COG0608, RecJ, Single-stranded DNA-specific exonuclease [DNA
replication, recombination, and repair].
Length = 491
Score = 28.2 bits (63), Expect = 6.0
Identities = 13/40 (32%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 250 PKHDHIALALAIAYQS-VTDHHKQRPPIDNLGPNDIIPDP 288
+ IA A + VTDHH PP + L I +P
Sbjct: 101 GSLEEIARAKELGIDVIVTDHH---PPGEELPDAVAIVNP 137
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
0.320 0.138 0.418
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,959,656
Number of extensions: 1567367
Number of successful extensions: 1347
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1332
Number of HSP's successfully gapped: 50
Length of query: 300
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 204
Effective length of database: 6,679,618
Effective search space: 1362642072
Effective search space used: 1362642072
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 (21.8 bits)
S2: 59 (26.5 bits)