RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022156
(302 letters)
>gnl|CDD|215461 PLN02856, PLN02856, fumarylacetoacetase.
Length = 424
Score = 599 bits (1547), Expect = 0.0
Identities = 234/304 (76%), Positives = 255/304 (83%), Gaps = 2/304 (0%)
Query: 1 MLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIV 60
MLLP IGDYTDFFSS HA N GT+FRGP NA+ NW HLPI YHGRASSVV SGTDI
Sbjct: 121 MLLPAVIGDYTDFFSSREHATNVGTMFRGPENALNPNWLHLPIGYHGRASSVVPSGTDIR 180
Query: 61 RPRGQFAP-SGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMND 119
RPRGQ P G+S P FGPS KLDFELEMAA VGPGNELGKPI VNEA DHIFG++LMND
Sbjct: 181 RPRGQLHPNDGSSRPYFGPSAKLDFELEMAAFVGPGNELGKPIPVNEAKDHIFGLVLMND 240
Query: 120 WSARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISK 179
WSARDIQ WEYVPLGPFLGKSF TT+SPWIVTLDALEPF CD+P QDP PLPYLAEK K
Sbjct: 241 WSARDIQKWEYVPLGPFLGKSFATTISPWIVTLDALEPFRCDAPAQDPPPLPYLAEKNRK 300
Query: 180 NYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISG 239
+YDISLEV IKPAG+ + VV RSNFK+LYWTL QQLAHHT+NGCNLR GDLLG+GTISG
Sbjct: 301 SYDISLEVAIKPAGQSKASVVCRSNFKHLYWTLAQQLAHHTVNGCNLRPGDLLGSGTISG 360
Query: 240 PEPESLGCLLELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIV 298
PEP SLGCLLELTW G + +SL G RKFLEDGDEV +G+CKG+GY VGFGTCSGK++
Sbjct: 361 PEPGSLGCLLELTWAGSREVSLEGGTRRKFLEDGDEVVLSGWCKGDGYRVGFGTCSGKVL 420
Query: 299 PSTP 302
P+ P
Sbjct: 421 PALP 424
>gnl|CDD|162276 TIGR01266, fum_ac_acetase, fumarylacetoacetase. This enzyme
catalyzes the final step in the breakdown of tyrosine or
phenylalanine to fumarate and acetoacetate [Energy
metabolism, Amino acids and amines].
Length = 415
Score = 465 bits (1199), Expect = e-165
Identities = 189/301 (62%), Positives = 231/301 (76%), Gaps = 1/301 (0%)
Query: 1 MLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIV 60
M LP +IGDYTDF+SS+ HA N G +FRG NA+ NW HLP+ YHGRASS+V+SGT +
Sbjct: 114 MHLPAQIGDYTDFYSSIQHATNVGIMFRGKENALLPNWKHLPVGYHGRASSIVVSGTPLR 173
Query: 61 RPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDW 120
RP GQ P PP FGP + LD ELEMA VGPGN LG+PI +++A +HIFGV+LMNDW
Sbjct: 174 RPMGQTLPDNAKPPVFGPCKLLDMELEMAFFVGPGNRLGEPIPISKAEEHIFGVVLMNDW 233
Query: 121 SARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKN 180
SARDIQAWEYVPLGPFL KSFGTT+SPW+V +DALEPF +PKQDP+PLPYL
Sbjct: 234 SARDIQAWEYVPLGPFLAKSFGTTISPWVVPIDALEPFRVPNPKQDPKPLPYLCHDAPYT 293
Query: 181 YDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGP 240
+DI+LEV +K G + + RSNFK++YWT+ QQLAHH++NGCNLR GDLLG+GTISG
Sbjct: 294 FDINLEVSLKGEGMSEPATICRSNFKHMYWTMLQQLAHHSVNGCNLRPGDLLGSGTISGS 353
Query: 241 EPESLGCLLELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVP 299
EP S G +LEL+W G+KP+ + G TR FLEDGDEV G C+G GY VGFG C+GK++P
Sbjct: 354 EPGSFGSMLELSWKGKKPIDVAQGETRTFLEDGDEVILRGHCQGEGYRVGFGECAGKVLP 413
Query: 300 S 300
+
Sbjct: 414 A 414
>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 = 128 bits (323), Expect = 4e-36
Identities = 70/283 (24%), Positives = 104/283 (36%), Gaps = 88/283 (31%)
Query: 18 HHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFG 77
HAK G+ V + P+ + S++V G IV PRG
Sbjct: 11 SHAKELGS-------GVEPPDYGPPVFFLKPPSALVGPGDPIVLPRG------------- 50
Query: 78 PSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFL 137
S++LD+E E+A V+G + + EA D++ G L ND SARD+Q F
Sbjct: 51 -SERLDYEAELAVVIGKD---LRAVTPEEALDYVAGYTLANDVSARDLQD--RDYRPWFR 104
Query: 138 GKSF--GTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKE 195
KSF L PWIVT D L A D+ L +++
Sbjct: 105 AKSFDGFAPLGPWIVTPDELGDPA----------------------DLELRLRV------ 136
Query: 196 DSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNG 255
+ +V + + ++ + +AH + L GD++ TGT SG P
Sbjct: 137 NGELVQDGSTADMIFSPAELIAHLS-RFLTLEPGDIILTGTPSGRAP------------- 182
Query: 256 QKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIV 298
FL+ GD V G GT ++V
Sbjct: 183 ----------ALFLQPGDVVE--------VEIEGLGTLENRVV 207
>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 = 123 bits (311), Expect = 1e-33
Identities = 69/293 (23%), Positives = 104/293 (35%), Gaps = 92/293 (31%)
Query: 10 YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPS 69
+ HA+ G +P P+ + ++V+ I P G
Sbjct: 63 VCVGRNYADHAEEMGK-----DRDIPE----EPVFFLKPPTAVIGPNDPIPLPPG----- 108
Query: 70 GNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWE 129
S+ LD+E E+A V+G GK + V +A D+I G + ND +ARD+Q E
Sbjct: 109 ---------SKGLDYEGELAVVIGKR---GKDVSVEDALDYIAGYTIGNDVTARDLQMEE 156
Query: 130 YVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEV 187
K F T + PWIVT D + DPQ LP +SL V
Sbjct: 157 KGRPW-TRAKGFDTFAPVGPWIVTKDEIS---------DPQNLP-----------LSLRV 195
Query: 188 QIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGC 247
G+ V R N + +++ + +A+ + L GD++ TGT SG
Sbjct: 196 N----GE----VRQRGNTSDMIFSIPELIAYLS-RFMTLEPGDVILTGTPSGVG------ 240
Query: 248 LLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPS 300
FL+ GD V + G G +V
Sbjct: 241 --------------------FLKPGDVVE----VEIE----GIGELENTVVKE 265
>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 = 37.9 bits (88), Expect = 0.004
Identities = 25/87 (28%), Positives = 39/87 (44%), Gaps = 12/87 (13%)
Query: 84 FELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGT 143
+E E+A VVG + K + +A D++ G + ND++ RD Y P + T
Sbjct: 95 YECELAVVVG---KTAKNVKREDAMDYVLGYTIANDYAIRDYLENYYRPNLRVKNRDTFT 151
Query: 144 TLSPWIVTLDALEPFACDSPKQDPQPL 170
+ PWIV + +E DP L
Sbjct: 152 PIGPWIVDKEDVE---------DPMNL 169
>gnl|CDD|235891 PRK06933, PRK06933, type III secretion system protein; Validated.
Length = 308
Score = 32.8 bits (75), Expect = 0.18
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 211 TLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLD 262
+L Q+L+H+ + + + T+S P P SL C+L+L W GQ +L
Sbjct: 15 SLRQRLSHYQ---QHFLWEEGKLSLTVSQP-PSSLDCILQLQWKGQ-TFTLY 61
>gnl|CDD|237193 PRK12764, PRK12764, hypothetical protein; Provisional.
Length = 500
Score = 31.6 bits (72), Expect = 0.57
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 29/101 (28%)
Query: 49 ASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAA 108
+SS+ +SG + RP G ++ L FE E+A V+G + + +A
Sbjct: 52 SSSLALSGGTVERPAG--------------TELLAFEGEIALVIG---RPARRVSPEDAW 94
Query: 109 DHIFGVMLMNDWSARDIQAWE------------YVPLGPFL 137
H+ V ND D++ + + P+GP L
Sbjct: 95 SHVAAVTAANDLGVYDLRYADKGSNLRSKGGDGFTPIGPAL 135
>gnl|CDD|185125 PRK15203, PRK15203, 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; Provisional.
Length = 429
Score = 30.4 bits (68), Expect = 1.4
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 82 LDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSF 141
+ +E E+ V+G + + + +A D++ G + ND++ RD Y P +
Sbjct: 273 MHYEAELVVVIG---KQARKVSEADAMDYVAGYTVCNDYAIRDYLENYYRPNLRVKSRDG 329
Query: 142 GTTLSPWIVTLDAL 155
T + IV +A+
Sbjct: 330 LTPILSTIVPKEAI 343
>gnl|CDD|221378 pfam12013, DUF3505, Protein of unknown function (DUF3505). This
family of proteins is functionally uncharacterized. This
protein is found in eukaryotes. Proteins in this family
are typically between 247 to 1018 amino acids in length.
This region contains two segments that are likely to be
C2H2 zinc binding domains.
Length = 108
Score = 28.1 bits (63), Expect = 2.5
Identities = 8/32 (25%), Positives = 11/32 (34%), Gaps = 3/32 (9%)
Query: 144 TLSPWIVTLDALEPFACDSPKQDPQPLPYLAE 175
+ W D +P A P P+P L
Sbjct: 48 AIRQWD---DLRDPEAVQWPSALSPPIPGLPV 76
>gnl|CDD|235441 PRK05388, argJ, bifunctional ornithine
acetyltransferase/N-acetylglutamate synthase protein;
Validated.
Length = 395
Score = 29.3 bits (67), Expect = 2.8
Identities = 9/23 (39%), Positives = 10/23 (43%)
Query: 263 GFTRKFLEDGDEVTFTGFCKGNG 285
R+ DG VT G KG G
Sbjct: 151 QAAREVEIDGKTVTIGGIAKGAG 173
>gnl|CDD|216811 pfam01960, ArgJ, ArgJ family. Members of the ArgJ family catalyze
the first EC:2.3.1.1 and fifth steps EC:2.3.1.35 in
arginine biosynthesis.
Length = 380
Score = 29.3 bits (67), Expect = 2.8
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 265 TRKFLEDGDEVTFTGFCKGNG 285
R+ G VT G KG+G
Sbjct: 146 AREVEIGGKTVTIGGIAKGSG 166
>gnl|CDD|176682 cd07261, Glo_EDI_BRP_like_11, This conserved domain belongs to a
superfamily including the bleomycin resistance protein,
glyoxalase I, and type I ring-cleaving dioxygenases.
This protein family belongs to a conserved domain
superfamily that is found in a variety of structurally
related metalloproteins, including the bleomycin
resistance protein, glyoxalase I, and type I
ring-cleaving dioxygenases. A bound metal ion is
required for protein activities for the members of this
superfamily. A variety of metal ions have been found in
the catalytic centers of these proteins including
Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein
superfamily contains members with or without domain
swapping.
Length = 114
Score = 27.2 bits (61), Expect = 5.4
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 5/38 (13%)
Query: 89 AAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQ 126
+ G G+EL +D A D ++ +W A+ ++
Sbjct: 54 SDATGGGSELAFMVDDGAAVDALY-----AEWQAKGVK 86
>gnl|CDD|182650 PRK10691, PRK10691, hypothetical protein; Provisional.
Length = 219
Score = 27.7 bits (62), Expect = 5.5
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 226 LRSGDLLGTGTISGPEPESLGCLLELTWNGQ 256
LR+GD++ TGT G P G L +T+NG
Sbjct: 182 LRAGDVVLTGTPEGVGPLQSGDELTVTFNGH 212
>gnl|CDD|215878 pfam00362, Integrin_beta, Integrin, beta chain. Integrins have
been found in animals and their homologues have also
been found in cyanobacteria, probably due to horizontal
gene transfer. The sequences repeats have been trimmed
due to an overlap with EGF.
Length = 424
Score = 28.0 bits (63), Expect = 7.2
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 271 DGDEVTFTGFCKGNGYTVGFGTCSG 295
DG V++T C G G G CS
Sbjct: 352 DGVSVSYTSDCPGGEELPGKGKCSN 376
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
0.318 0.138 0.442
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,787,122
Number of extensions: 1500468
Number of successful extensions: 1076
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1067
Number of HSP's successfully gapped: 17
Length of query: 302
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 206
Effective length of database: 6,679,618
Effective search space: 1376001308
Effective search space used: 1376001308
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: 59 (26.6 bits)