RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018339
(357 letters)
>gnl|CDD|215461 PLN02856, PLN02856, fumarylacetoacetase.
Length = 424
Score = 683 bits (1765), Expect = 0.0
Identities = 266/355 (74%), Positives = 296/355 (83%), Gaps = 2/355 (0%)
Query: 5 QPNLNKFLSLGRPAWKEARDMLQKLLSSNEATLRDNANLRQKSLVPMGKVEMLLPMEIGD 64
QP LNKF+++GRPAWKEAR LQ+LLS++E LRDN+ LR+K+ PM VEMLLP IGD
Sbjct: 70 QPTLNKFMAMGRPAWKEARSTLQRLLSADEPALRDNSELRKKAFHPMSDVEMLLPAVIGD 129
Query: 65 YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAP- 123
YTDFFSS HA N GT+FRGP NA+ NW HLPI YHGRASSVV SGTDI RPRGQ P
Sbjct: 130 YTDFFSSREHATNVGTMFRGPENALNPNWLHLPIGYHGRASSVVPSGTDIRRPRGQLHPN 189
Query: 124 SGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAW 183
G+S P FGPS KLDFELEMAA VGPGNELGKPI VNEA DHIFG++LMNDWSARDIQ W
Sbjct: 190 DGSSRPYFGPSAKLDFELEMAAFVGPGNELGKPIPVNEAKDHIFGLVLMNDWSARDIQKW 249
Query: 184 EYVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQ 243
EYVPLGPFLGKSF TT+SPWIVTLDALEPF CD+P QDP PLPYLAEK K+YDISLEV
Sbjct: 250 EYVPLGPFLGKSFATTISPWIVTLDALEPFRCDAPAQDPPPLPYLAEKNRKSYDISLEVA 309
Query: 244 IKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCL 303
IKPAG+ + VV RSNFK+LYWTL QQLAHHT+NGCNLR GDLLG+GTISGPEP SLGCL
Sbjct: 310 IKPAGQSKASVVCRSNFKHLYWTLAQQLAHHTVNGCNLRPGDLLGSGTISGPEPGSLGCL 369
Query: 304 LELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPSTP 357
LELTW G + +SL G RKFLEDGDEV +G+CKG+GY VGFGTCSGK++P+ P
Sbjct: 370 LELTWAGSREVSLEGGTRRKFLEDGDEVVLSGWCKGDGYRVGFGTCSGKVLPALP 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 = 524 bits (1351), Expect = 0.0
Identities = 219/352 (62%), Positives = 269/352 (76%), Gaps = 1/352 (0%)
Query: 5 QPNLNKFLSLGRPAWKEARDMLQKLLSSNEATLRDNANLRQKSLVPMGKVEMLLPMEIGD 64
Q LN F++LGRPAWKEAR LQ LLS+++A LRDNA LRQ++L P + M LP +IGD
Sbjct: 63 QSTLNAFMALGRPAWKEARARLQNLLSASQARLRDNAALRQRALTPQAEATMHLPAQIGD 122
Query: 65 YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPS 124
YTDF+SS+ HA N G +FRG NA+ NW HLP+ YHGRASS+V+SGT + RP GQ P
Sbjct: 123 YTDFYSSIQHATNVGIMFRGKENALLPNWKHLPVGYHGRASSIVVSGTPLRRPMGQTLPD 182
Query: 125 GNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWE 184
PP FGP + LD ELEMA VGPGN LG+PI +++A +HIFGV+LMNDWSARDIQAWE
Sbjct: 183 NAKPPVFGPCKLLDMELEMAFFVGPGNRLGEPIPISKAEEHIFGVVLMNDWSARDIQAWE 242
Query: 185 YVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQI 244
YVPLGPFL KSFGTT+SPW+V +DALEPF +PKQDP+PLPYL +DI+LEV +
Sbjct: 243 YVPLGPFLAKSFGTTISPWVVPIDALEPFRVPNPKQDPKPLPYLCHDAPYTFDINLEVSL 302
Query: 245 KPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLL 304
K G + + RSNFK++YWT+ QQLAHH++NGCNLR GDLLG+GTISG EP S G +L
Sbjct: 303 KGEGMSEPATICRSNFKHMYWTMLQQLAHHSVNGCNLRPGDLLGSGTISGSEPGSFGSML 362
Query: 305 ELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPS 355
EL+W G+KP+ + G TR FLEDGDEV G C+G GY VGFG C+GK++P+
Sbjct: 363 ELSWKGKKPIDVAQGETRTFLEDGDEVILRGHCQGEGYRVGFGECAGKVLPA 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 = 130 bits (330), Expect = 2e-36
Identities = 71/283 (25%), Positives = 105/283 (37%), Gaps = 88/283 (31%)
Query: 73 HHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFG 132
HAK G+ V + P+ + S++V G IV PRG
Sbjct: 11 SHAKELGS-------GVEPPDYGPPVFFLKPPSALVGPGDPIVLPRG------------- 50
Query: 133 PSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFL 192
S++LD+E E+A V+G + + EA D++ G L ND SARD+Q F
Sbjct: 51 -SERLDYEAELAVVIGKD---LRAVTPEEALDYVAGYTLANDVSARDLQD--RDYRPWFR 104
Query: 193 GKSF--GTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKE 250
KSF L PWIVT D L A D+ L +++ G+
Sbjct: 105 AKSFDGFAPLGPWIVTPDELGDPA----------------------DLELRLRV--NGE- 139
Query: 251 DSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNG 310
+V + + ++ + +AH + L GD++ TGT SG P
Sbjct: 140 ---LVQDGSTADMIFSPAELIAHLS-RFLTLEPGDIILTGTPSGRAP------------- 182
Query: 311 QKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIV 353
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 = 126 bits (319), Expect = 3e-34
Identities = 72/315 (22%), Positives = 110/315 (34%), Gaps = 92/315 (29%)
Query: 43 LRQKSLVPMGKVEMLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHG 102
L + ++ LP + HA+ G +P P+ +
Sbjct: 41 LPLAGELAEVRLLAPLPPPGKIVCVGRNYADHAEEMGK-----DRDIPE----EPVFFLK 91
Query: 103 RASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEA 162
++V+ I P G S+ LD+E E+A V+G GK + V +A
Sbjct: 92 PPTAVIGPNDPIPLPPG--------------SKGLDYEGELAVVIGKR---GKDVSVEDA 134
Query: 163 ADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQ 220
D+I G + ND +ARD+Q E K F T + PWIVT D +
Sbjct: 135 LDYIAGYTIGNDVTARDLQMEEKGRPW-TRAKGFDTFAPVGPWIVTKDEIS--------- 184
Query: 221 DPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCN 280
DPQ LP +SL V G+ V R N + +++ + +A+ +
Sbjct: 185 DPQNLP-----------LSLRVN----GE----VRQRGNTSDMIFSIPELIAYLS-RFMT 224
Query: 281 LRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNG 340
L GD++ TGT SG FL+ GD V +
Sbjct: 225 LEPGDVILTGTPSGVG--------------------------FLKPGDVVE----VEIE- 253
Query: 341 YTVGFGTCSGKIVPS 355
G G +V
Sbjct: 254 ---GIGELENTVVKE 265
>gnl|CDD|220168 pfam09298, DUF1969, Domain of unknown function (DUF1969). The
N-terminal domain of fumarylacetoacetate hydrolase is
functionally uncharacterized, and adopts a structure
consisting of an SH3-like barrel.
Length = 101
Score = 73.8 bits (182), Expect = 2e-16
Identities = 29/55 (52%), Positives = 35/55 (63%), Gaps = 3/55 (5%)
Query: 5 QPNLNKFLSLGRPAWKEARDMLQKLLSSNEATLRDNANLRQKSLVPMGKVEMLLP 59
QP LN F++LGRPAW R LQ+LLS L DN LR+ +LVP VE+ LP
Sbjct: 50 QPTLNAFMALGRPAWSAVRARLQELLSR---ELSDNQALREPALVPQADVELHLP 101
>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: 139 FELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGT 198
+E E+A VVG + K + +A D++ G + ND++ RD Y P + T
Sbjct: 95 YECELAVVVG---KTAKNVKREDAMDYVLGYTIANDYAIRDYLENYYRPNLRVKNRDTFT 151
Query: 199 TLSPWIVTLDALEPFACDSPKQDPQPL 225
+ PWIV + +E DP L
Sbjct: 152 PIGPWIVDKEDVE---------DPMNL 169
>gnl|CDD|235891 PRK06933, PRK06933, type III secretion system protein; Validated.
Length = 308
Score = 32.4 bits (74), Expect = 0.33
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 266 TLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLD 317
+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 = 0.58
Identities = 30/122 (24%), Positives = 49/122 (40%), Gaps = 36/122 (29%)
Query: 83 RGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELE 142
RG A P+ +F P +SS+ +SG + RP G ++ L FE E
Sbjct: 38 RGRTPAQPS-YFLKP------SSSLALSGGTVERPAG--------------TELLAFEGE 76
Query: 143 MAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWE------------YVPLGP 190
+A V+G + + +A H+ V ND D++ + + P+GP
Sbjct: 77 IALVIG---RPARRVSPEDAWSHVAAVTAANDLGVYDLRYADKGSNLRSKGGDGFTPIGP 133
Query: 191 FL 192
L
Sbjct: 134 AL 135
>gnl|CDD|185125 PRK15203, PRK15203, 4-hydroxyphenylacetate degradation bifunctional
isomerase/decarboxylase; Provisional.
Length = 429
Score = 30.4 bits (68), Expect = 1.6
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 137 LDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSF 196
+ +E E+ V+G + + + +A D++ G + ND++ RD Y P +
Sbjct: 273 MHYEAELVVVIG---KQARKVSEADAMDYVAGYTVCNDYAIRDYLENYYRPNLRVKSRDG 329
Query: 197 GTTLSPWIVTLDAL 210
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 = 2.6
Identities = 8/32 (25%), Positives = 11/32 (34%), Gaps = 3/32 (9%)
Query: 199 TLSPWIVTLDALEPFACDSPKQDPQPLPYLAE 230
+ 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 = 3.3
Identities = 9/23 (39%), Positives = 10/23 (43%)
Query: 318 GFTRKFLEDGDEVTFTGFCKGNG 340
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 = 3.3
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 320 TRKFLEDGDEVTFTGFCKGNG 340
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: 144 AAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQ 181
+ G G+EL +D A D ++ +W A+ ++
Sbjct: 54 SDATGGGSELAFMVDDGAAVDALY-----AEWQAKGVK 86
>gnl|CDD|182650 PRK10691, PRK10691, hypothetical protein; Provisional.
Length = 219
Score = 28.1 bits (63), Expect = 6.4
Identities = 14/31 (45%), Positives = 19/31 (61%)
Query: 281 LRSGDLLGTGTISGPEPESLGCLLELTWNGQ 311
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 = 8.7
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 326 DGDEVTFTGFCKGNGYTVGFGTCSG 350
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 0.137 0.432
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: 18,505,910
Number of extensions: 1767839
Number of successful extensions: 1324
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1314
Number of HSP's successfully gapped: 19
Length of query: 357
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 259
Effective length of database: 6,590,910
Effective search space: 1707045690
Effective search space used: 1707045690
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: 60 (26.9 bits)