RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17227
(268 letters)
>gnl|CDD|149273 pfam08123, DOT1, Histone methylation protein DOT1. The DOT1 domain
regulates gene expression by methylating histone H3. H3
methylation by DOT1 has been shown to be required for
the DNA damage checkpoint in yeast.
Length = 205
Score = 256 bits (657), Expect = 8e-87
Identities = 82/174 (47%), Positives = 112/174 (64%), Gaps = 3/174 (1%)
Query: 15 YNQSV-TEPEKLNVYQPFSPFVYGETSFDLISRMIDQINATPDDVFVDLGSGVGQVVLQV 73
Y++SV + KLN Y+ FS VYGE + +S ++D+ N P DVFVDLGSGVG VLQ
Sbjct: 1 YSRSVSPDANKLNHYKAFSNEVYGELLPEFLSDVLDKCNLGPQDVFVDLGSGVGNCVLQA 60
Query: 74 AAATGCKICWGVEKADLPAKYAEMHTV-FKRWMQWYGKRHGEFRLVKGDFLTEEHREKI- 131
A GCK+ +G E D + AE+ FK+ + +GK+ G+ ++G FL E E+I
Sbjct: 61 ALEFGCKLSFGCEIMDNASNLAELQDEEFKKRCKLFGKKLGKIEFIRGSFLDNERVEEII 120
Query: 132 TQASIVFVNNFAFGPTVDHALKERFQDLKDGARIVSSKSFCPLNFRITDRNLTD 185
+A ++ VNNFAF P ++ LKE QDLKDG +I+S KSF PLN+RI RNL+D
Sbjct: 121 PEADVILVNNFAFDPELNLQLKEMLQDLKDGCKIISLKSFVPLNYRINFRNLSD 174
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 43.2 bits (102), Expect = 1e-05
Identities = 21/110 (19%), Positives = 40/110 (36%), Gaps = 12/110 (10%)
Query: 59 FVDLGSGVGQVVLQVAAATGCKICWGVEKADLPAKYAEMHTVFKRWMQWYGKRHGEFRLV 118
+DLG G G + L +A+ G ++ GV+ + + + A ++
Sbjct: 2 VLDLGCGTGALALALASGPGARV-TGVDISPVALELAR--------KAAAALLADNVEVL 52
Query: 119 KGDFLTEEHREKITQASIVFVNN--FAFGPTVDHALKERFQDLKDGARIV 166
KGD E ++ + + L+E + LK G +V
Sbjct: 53 KGDAEELPP-EADESFDVIISDPPLHHLVEDLARFLEEARRLLKPGGVLV 101
>gnl|CDD|176204 cd08242, MDR_like, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family, including threonine dehydrogenase.
The 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 a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 32.6 bits (75), Expect = 0.17
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 46 RMIDQINATPDDVFVDLGSG-VGQVVLQVAAATGCKI 81
+++Q+ TP D LG G +G ++ QV A TG +
Sbjct: 146 EILEQVPITPGDKVAVLGDGKLGLLIAQVLALTGPDV 182
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 30.9 bits (70), Expect = 0.26
Identities = 29/121 (23%), Positives = 39/121 (32%), Gaps = 19/121 (15%)
Query: 56 DDVFVDLGSGVGQVVLQVAAATGCKICWGVEKADLPAKYAEMHTVFKRWMQWYGKRHGEF 115
D +D G+G G +L A A GVE A A +R + G
Sbjct: 1 GDRVLDPGAGSGAFLLAAARAGPDARVVGVELDPEAAALA------RRRLALAG-LAPRV 53
Query: 116 RLVKGDFLTEEHREKITQASIVFVNNFAFGPTV----------DHALKERFQDLKDGARI 165
R+V GD +V N +GP D L + LK G +
Sbjct: 54 RVVVGDARELLELPD-GSFDLVLGNPP-YGPRAGDPKDNRDLYDRFLAAALRLLKPGGVL 111
Query: 166 V 166
V
Sbjct: 112 V 112
>gnl|CDD|205520 pfam13340, DUF4096, Putative transposase of IS4/5 family (DUF4096).
Length = 75
Score = 29.7 bits (68), Expect = 0.31
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 77 TGCKICWGVEKADLPAKYAEMHTVFKRWMQW 107
TGC W DLP + TV++R+ +W
Sbjct: 40 TGCP--W----RDLPEDFGPWSTVYRRFRRW 64
>gnl|CDD|184702 PRK14484, PRK14484, phosphotransferase mannnose-specific family
component IIA; Provisional.
Length = 124
Score = 30.2 bits (69), Expect = 0.37
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 39 TSFDLISRMIDQINATPDDV--FVDLGS 64
TSFD I I++ D V F DLGS
Sbjct: 43 TSFDQIQEAIEK--NESDGVLIFFDLGS 68
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 30.8 bits (70), Expect = 0.61
Identities = 30/108 (27%), Positives = 45/108 (41%), Gaps = 31/108 (28%)
Query: 63 GSGVGQVVLQVAAATGCKICWGV----EKADLPAKYAEMHTVFKRWMQWYGKRHGEFRLV 118
G GVG +QVA A G K+ V KA + +KYA+ ++
Sbjct: 172 GGGVGIHAIQVAKALGAKVI-AVTSSESKAKIVSKYAD-------------------YVI 211
Query: 119 KGDFLTEEHREKITQASIVFVNNFAFGPTVDHALKERFQDLKDGARIV 166
G +EE + KI A IV PT++ +L+ L G +I+
Sbjct: 212 VGSKFSEEVK-KIGGADIVIET--VGTPTLEESLRS----LNMGGKII 252
>gnl|CDD|131964 TIGR02918, TIGR02918, accessory Sec system glycosylation protein
GtfA. Members of this protein family are found only in
Gram-positive bacteria of the Firmicutes lineage,
including several species of Staphylococcus,
Streptococcus, and Lactobacillus. Members are associated
with glycosylation of serine-rich glycoproteins exported
by the accessory Sec system [Protein fate, Protein
modification and repair].
Length = 500
Score = 30.4 bits (69), Expect = 0.97
Identities = 12/32 (37%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 42 DLISRMIDQINATPDD-VFVDLGSGVGQVVLQ 72
+LI+ + Q+N T D + +D +G+GQ VL+
Sbjct: 198 ELIAYFLKQLNLTKKDIIILDRSTGIGQAVLE 229
>gnl|CDD|233880 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In
many organisms, this protein is fused to the CbiE
subunit. The fused protein, when found in organisms
catalyzing the oxidative version of the cobalamin
biosynthesis pathway, is called CobL [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 124
Score = 29.2 bits (66), Expect = 1.0
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 55 PDDVFVDLGSGVGQVVLQVAAATGCKICWGVEK 87
P DV D+G+G G V ++ A + +E+
Sbjct: 19 PGDVLWDIGAGTGSVTIEAARLVPNGRVYAIER 51
>gnl|CDD|176217 cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like,
2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and
other MDR family members. This subgroup of the medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family has members identified
as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A
dehydrogenase and alcohol dehydrogenases. The 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 a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 277
Score = 29.9 bits (68), Expect = 1.1
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 48 IDQINATPDDVFVDLGSG-VGQVVLQVAAATGCKICWGVEKADLPAKYAE 96
+ + +G G VG + Q+A A G + GV+ + AE
Sbjct: 90 VRDAEPRLGERVAVVGLGLVGLLAAQLAKAAGAREVVGVDPDAARRELAE 139
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(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 a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 30.0 bits (68), Expect = 1.3
Identities = 27/127 (21%), Positives = 49/127 (38%), Gaps = 27/127 (21%)
Query: 46 RMIDQIN-ATPDDVFVDLG-SGVGQVVLQVAAATGCKICWGVEKADLPAKYAEMHTVFKR 103
+ + P D + LG GVG + Q+A A G ++ +++D + A
Sbjct: 124 HALRRAGVLKPGDTVLVLGAGGVGLLAAQLAKAAGARV-IVTDRSDEKLELA-------- 174
Query: 104 WMQWYGKRHGEFRLVKGDFLTEEHREKITQASI----VFVNNFAFGPTVDHALKERFQDL 159
K G ++ D+ E+ E++ V ++ T+ AL+ L
Sbjct: 175 ------KELGADHVI--DYKEEDLEEELRLTGGGGADVVIDAVGGPETLAQALR----LL 222
Query: 160 KDGARIV 166
+ G RIV
Sbjct: 223 RPGGRIV 229
>gnl|CDD|176255 cd08295, double_bond_reductase_like, Arabidopsis alkenal double
bond reductase and leukotriene B4
12-hydroxydehydrogenase. This group includes proteins
identified as the Arabidopsis alkenal double bond
reductase and leukotriene B4 12-hydroxydehydrogenase.
The Arabidopsis enzyme, a member of the medium chain
dehydrogenase/reductase family, catalyzes the reduction
of 7-8-double bond of phenylpropanal substrates as a
plant defense mechanism. Prostaglandins and related
eicosanoids (lipid mediators involved in host defense
and inflamation) are metabolized by the oxidation of the
15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. Leukotriene B4 (LTB4)
can be metabolized by LTB4 20-hydroxylase in inflamatory
cells, and in other cells by bifunctional LTB4
12-HD/PGR. These 15-PGDH and related enzymes are members
of the medium chain dehydrogenase/reductase family. The
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 = 338
Score = 30.0 bits (68), Expect = 1.3
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 56 DDVFVDLGSG-VGQVVLQVAAATGCKI--CWGV-EKADLP 91
+ VFV SG VGQ+V Q+A GC + G EK DL
Sbjct: 153 ETVFVSAASGAVGQLVGQLAKLKGCYVVGSAGSDEKVDLL 192
>gnl|CDD|233597 TIGR01850, argC, N-acetyl-gamma-glutamyl-phosphate reductase,
common form. This model represents the more common of
two related families of
N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme
catalyzing the third step or Arg biosynthesis from Glu.
The two families differ by phylogeny, similarity
clustering, and the gap architecture in a multiple
sequence alignment. Bacterial members of this family
tend to be found within Arg biosynthesis operons [Amino
acid biosynthesis, Glutamate family].
Length = 346
Score = 29.9 bits (68), Expect = 1.5
Identities = 33/122 (27%), Positives = 48/122 (39%), Gaps = 29/122 (23%)
Query: 29 QPFS---PFVYGETSFDLISRMIDQINATPDDVFVDLGSGVGQVVLQVAAATGCKICWGV 85
+P S P + G +L +++I D VF+ L GV + A G K+
Sbjct: 40 KPVSEVHPHLRGLVDLNLEPIDVEEILEDADVVFLALPHGVSAELAPELLAAGVKV---- 95
Query: 86 EKADLPAKYAEMHTVFKR------WMQWYGKRHGEFRL----VKGDFLTEEHREKITQAS 135
DL A + R + +WYG H L V G L E HRE+I A
Sbjct: 96 --IDLSADF--------RLKDPELYEKWYGFEHAGPELLQKAVYG--LPELHREEIKGAR 143
Query: 136 IV 137
++
Sbjct: 144 LI 145
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 29.1 bits (66), Expect = 2.3
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 9/48 (18%)
Query: 33 PFV--YGETSFDLISRMIDQINATPDDVFVDLGSGVGQVVLQVAAATG 78
P Y +F+L+ P D +D+G G G ++A G
Sbjct: 2 PDFRRYRARTFELL-------AVQPGDRVLDVGCGPGNDARELARRVG 42
>gnl|CDD|176190 cd05288, PGDH, Prostaglandin dehydrogenases. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto-13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The 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 a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 29.0 bits (66), Expect = 2.7
Identities = 13/38 (34%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 56 DDVFVDLGSG-VGQVVLQVAAATGCK---ICWGVEKAD 89
+ V V +G VG VV Q+A G + I EK
Sbjct: 147 ETVVVSAAAGAVGSVVGQIAKLLGARVVGIAGSDEKCR 184
>gnl|CDD|227714 COG5427, COG5427, Uncharacterized membrane protein [Function
unknown].
Length = 684
Score = 29.1 bits (65), Expect = 2.7
Identities = 12/43 (27%), Positives = 17/43 (39%)
Query: 64 SGVGQVVLQVAAATGCKICWGVEKADLPAKYAEMHTVFKRWMQ 106
+ G + VAA G + A Y +TVFK + Q
Sbjct: 441 NAAGVECVLVAAGAGLVVLVEYVYLADAASYERFNTVFKVYAQ 483
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.
Length = 254
Score = 28.8 bits (65), Expect = 3.0
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 43 LISRMIDQINATPDDVFVDLGSGVGQ 68
+I+R++D+ N D +++G G G
Sbjct: 17 VINRIVDKANLQESDTVLEIGPGKGA 42
>gnl|CDD|217556 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family
comprised of three structural domains that can not be
separated in the linear sequence. In some organisms this
enzyme is found as a bifunctional polypeptide with
lysine ketoglutarate reductase. The saccharopine
dehydrogenase can also function as a saccharopine
reductase.
Length = 380
Score = 28.8 bits (65), Expect = 3.3
Identities = 18/65 (27%), Positives = 23/65 (35%), Gaps = 11/65 (16%)
Query: 126 EHREKITQASIVFVNNFAFGPTVDHAL-KERFQDLKD-GARIVSSKSFC---------PL 174
EK A + V F P + K DL D A+++S K C PL
Sbjct: 105 ALHEKAKDAGVTAVLGCGFDPGLVSLFAKYALDDLADELAKVLSVKIHCGGRPEPKDNPL 164
Query: 175 NFRIT 179
F T
Sbjct: 165 EFANT 169
>gnl|CDD|234761 PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase;
Validated.
Length = 343
Score = 28.6 bits (65), Expect = 3.3
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 104 WMQWYGKRHGEFRLVK----GDFLTEEHREKITQASIV 137
+ +WYG H L+K G L E +RE+I A ++
Sbjct: 110 YEKWYGFEHAAPELLKEAVYG--LPELNREEIKGARLI 145
>gnl|CDD|223081 COG0002, ArgC, Acetylglutamate semialdehyde dehydrogenase [Amino
acid transport and metabolism].
Length = 349
Score = 28.4 bits (64), Expect = 3.7
Identities = 31/120 (25%), Positives = 43/120 (35%), Gaps = 40/120 (33%)
Query: 28 YQPFSPFVYGETSFDLISRMIDQINATPDDVFVDLGSGVGQVVLQVAAATGCKICWGVEK 87
+Q P D++ A P V +L V ++ A GCK+
Sbjct: 58 FQTIDPEKIELDECDVV------FLALPHGVSAEL-------VPELLEA-GCKV------ 97
Query: 88 ADLPAKYAEMHTVFKR------WMQWYGKRHGEFRL----VKGDFLTEEHREKITQASIV 137
DL A + R + +WYG H L V G L E HREKI A ++
Sbjct: 98 IDLSADF--------RLKDPEVYEKWYGFTHAGPELLEDAVYG--LPELHREKIRGAKLI 147
>gnl|CDD|129918 TIGR00838, argH, argininosuccinate lyase. This model describes
argininosuccinate lyase, but may include examples of
avian delta crystallins, in which argininosuccinate
lyase activity may or may not be present and the
biological role is to provide the optically clear
cellular protein of the eye lens [Amino acid
biosynthesis, Glutamate family].
Length = 455
Score = 28.5 bits (64), Expect = 4.0
Identities = 28/111 (25%), Positives = 33/111 (29%), Gaps = 28/111 (25%)
Query: 117 LVKGDFLTEEHREKITQA--SI---VFVNNFAFGPTVD--HALKERFQDLKDGARIVSSK 169
L K LTEE KI + + F P + H ER
Sbjct: 42 LKKAGILTEEEAAKIIEGLNELKEEGREGPFILDPDDEDIHMAIER-------------- 87
Query: 170 SFCPLNFRITDRNLTDGGKKVPPGRGCVDQTLTSLSTATALPVSELHTELE 220
+ DR D G K+ GR DQ T L V EL L
Sbjct: 88 -------ELIDRVGEDLGGKLHTGRSRNDQVATDLRLYLRDHVLELAEALL 131
>gnl|CDD|187890 cd09760, Cas6_III, CRISPR/Cas system-associated RAMP superfamily
protein Cas6. CRISPR (Clustered Regularly Interspaced
Short Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Cas6 is an endoribonuclease that generates crRNAs,
predicted subunit of Cascade complex.
Length = 289
Score = 28.5 bits (63), Expect = 4.0
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 187 GKKVPPGRGCVDQTLTSLSTATALPVSELHTELEI---PPTPAETPYSLQMLLDILRNQY 243
GK+V G + L+S+ P E+ E+E+ P A+TP +L L+ I+R +
Sbjct: 143 GKEVYDGETVFVENLSSIELGKIKP-REVEKEIEVDYLTPMEAKTPINLPFLIHIVRRRL 201
Query: 244 LAMIERLKS 252
+ + S
Sbjct: 202 ILFVNEYGS 210
>gnl|CDD|176250 cd08290, ETR, 2-enoyl thioester reductase (ETR). 2-enoyl thioester
reductase (ETR) catalyzes the NADPH-dependent conversion
of trans-2-enoyl acyl carrier protein/coenzyme A
(ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
2-enoyl thioester reductase activity has been linked in
Candida tropicalis as essential in maintaining
mitiochondrial respiratory function. This ETR family is
a part of the medium chain dehydrogenase/reductase
family, but lack the zinc coordination sites
characteristic of the alcohol dehydrogenases in this
family. NAD(P)(H)-dependent oxidoreductases are the
major enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. The N-terminal catalytic domain has a
distant homology to GroES. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit, a catalytic zinc at the active site, and a
structural zinc in a lobe of the catalytic domain.
NAD(H) binding occurs in the cleft between the catalytic
and coenzyme-binding domains, at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters in
mitochondrial fatty acid synthesis. Etr1p forms
homodimers, with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 341
Score = 28.0 bits (63), Expect = 4.9
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 46 RMIDQ-INATPDDVFVDLG--SGVGQVVLQVAAATGCK 80
R+++ + P D + G S VGQ V+Q+A G K
Sbjct: 136 RLLEDFVKLQPGDWVIQNGANSAVGQAVIQLAKLLGIK 173
>gnl|CDD|216433 pfam01323, DSBA, DSBA-like thioredoxin domain. This family
contains a diverse set of proteins with a
thioredoxin-like structure pfam00085. This family also
includes 2-hydroxychromene-2-carboxylate (HCCA)
isomerase enzymes catalyze one step in prokaryotic
polyaromatic hydrocarbon (PAH) catabolic pathways. This
family also contains members with functions other than
HCCA isomerisation, such as Kappa family GSTs, whose
similarity to HCCA isomerases was not previously
recognised. Some member sequences have been annotated as
a dioxygenases, dehydrogenases, and putative
glycerol-3-phosphate transfer proteins, but are most
likely HCCA isomerase enzymes.
Length = 191
Score = 27.8 bits (62), Expect = 5.0
Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 17/70 (24%)
Query: 57 DVFVDLGSG---VGQVVLQVAAA--TGCKICW------------GVEKADLPAKYAEMHT 99
D F D + + L+ AA K+ + V ++LP K M
Sbjct: 3 DEFFDFLCPFCYLAKERLEKLAARYGDVKVVYRPFPLAGAKKIGNVGPSNLPVKLKYMMA 62
Query: 100 VFKRWMQWYG 109
+RW YG
Sbjct: 63 DLERWAALYG 72
>gnl|CDD|201540 pfam00992, Troponin, Troponin. Troponin (Tn) contains three
subunits, Ca2+ binding (TnC), inhibitory (TnI), and
tropomyosin binding (TnT). this Pfam contains members of
the TnT subunit. Troponin is a complex of three
proteins, Ca2+ binding (TnC), inhibitory (TnI), and
tropomyosin binding (TnT). The troponin complex
regulates Ca++ induced muscle contraction. This family
includes troponin T and troponin I. Troponin I binds to
actin and troponin T binds to tropomyosin.
Length = 131
Score = 27.1 bits (61), Expect = 5.1
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 225 PAETPYSLQMLLDILRNQYLAMIERLKSEKYKKEVEDQ---IEIE 266
P S L ++ + + A I+RL E+Y E + EIE
Sbjct: 37 PLRLSLSRAELQELCK-KLHARIDRLDEERYDIEEKVAKKDKEIE 80
>gnl|CDD|226562 COG4076, COG4076, Predicted RNA methylase [General function
prediction only].
Length = 252
Score = 27.9 bits (62), Expect = 5.1
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 51 INATPDDVFVDLGSGVGQVVLQVAAATGCKICWGVEKADLPAKYAE 96
I +D F DLG+G G +L V AA + +EK A+ AE
Sbjct: 28 IAEVAEDTFADLGAGSG--ILSVVAAHAAERVIAIEKDPKRARLAE 71
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 27.6 bits (62), Expect = 5.2
Identities = 24/116 (20%), Positives = 47/116 (40%), Gaps = 19/116 (16%)
Query: 54 TPDDVFVDLGSGVGQVVLQVAAAT-GCKICWGVEKADLPAKYAEMHTVFKRWMQWYGKRH 112
P D D+G+G G + ++ A A ++ +E+ + + E + R
Sbjct: 33 RPGDRLWDIGAGTGSITIEWALAGPSGRV-IAIERDEEALELIERNA----------ARF 81
Query: 113 GE--FRLVKGDFLTEEHREKITQASIVFVNNFAFGPTVDHALKERFQDLKDGARIV 166
G +V+GD E + +F+ G ++ L+ ++ LK G R+V
Sbjct: 82 GVDNLEVVEGD--APEALPDLPSPDAIFIGG---GGNIEEILEAAWERLKPGGRLV 132
>gnl|CDD|215195 PLN02341, PLN02341, pfkB-type carbohydrate kinase family protein.
Length = 470
Score = 28.3 bits (63), Expect = 5.3
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 123 LTEEHREKITQASIVFVNNFAF 144
L+ E + I Q+ +F N + F
Sbjct: 214 LSAEAKMAIRQSKALFCNGYVF 235
>gnl|CDD|214748 smart00631, Zn_pept, Zn_pept domain.
Length = 277
Score = 28.1 bits (63), Expect = 5.3
Identities = 22/89 (24%), Positives = 33/89 (37%), Gaps = 16/89 (17%)
Query: 26 NVYQPFSPFVYGETSFDLISRMIDQINATPD-DVFVDLGSGVGQVVLQVAAATGCKICWG 84
Y SPF ET + D I + +++DL S Q++L +G
Sbjct: 148 ETYAGPSPFSEPETKA-----VRDFIRSNRRFKLYIDLHSY-SQLIL---------YPYG 192
Query: 85 VEKADLPAKYAEMHTVFKRWMQWYGKRHG 113
K DLP ++ V K + HG
Sbjct: 193 YTKNDLPPNVDDLDAVAKALAKALASVHG 221
>gnl|CDD|181657 PRK09116, PRK09116, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 405
Score = 28.0 bits (63), Expect = 6.0
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 121 DFLTEEHREKITQASIVFVNNFAFG 145
D++ E RE V NNFAFG
Sbjct: 374 DYIMGEARE--IDTEYVMSNNFAFG 396
>gnl|CDD|225041 COG2130, COG2130, Putative NADP-dependent oxidoreductases [General
function prediction only].
Length = 340
Score = 27.6 bits (62), Expect = 6.4
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 56 DDVFVDLGSG-VGQVVLQVAAATGCK---ICWGVEKADL 90
+ V V +G VG VV Q+A GC+ I G EK D
Sbjct: 152 ETVVVSAAAGAVGSVVGQIAKLKGCRVVGIAGGAEKCDF 190
>gnl|CDD|215605 PLN03153, PLN03153, hypothetical protein; Provisional.
Length = 537
Score = 28.0 bits (62), Expect = 6.6
Identities = 16/32 (50%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 222 PPTPAETPYSLQMLLDILRNQYLAMIERLKSE 253
PP+ P SL LD RN+ L+ IERLK E
Sbjct: 87 PPSSPSLPSSLL--LDHFRNRSLSEIERLKVE 116
>gnl|CDD|191033 pfam04576, Zein-binding, Zein-binding. This domain binds to zein
proteins, pfam01559. Zein proteins are seed storage
proteins.
Length = 94
Score = 26.1 bits (58), Expect = 7.3
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 241 NQYLAMIERLKSEKYKKEVE 260
++ +AMI RL+ EK E+E
Sbjct: 34 SEAMAMILRLQEEKAALEME 53
>gnl|CDD|238995 cd02038, FleN-like, FleN is a member of the Fer4_NifH
superfamily. It shares the common function as an
ATPase, with the ATP-binding domain at the N-terminus.
In Pseudomonas aeruginosa, FleN gene is involved in
regulating the number of flagella and chemotactic
motility by influencing FleQ activity.
Length = 139
Score = 26.7 bits (60), Expect = 7.3
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 56 DDVFVDLGSGVGQVVLQVAAATGCKIC 82
D + +D G+G+ VL A I
Sbjct: 46 DYIIIDTGAGISDNVLDFFLAADEVIV 72
>gnl|CDD|176233 cd08272, MDR6, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group is a member of the medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, but lacks the zinc-binding
sites of the zinc-dependent alcohol dehydrogenases. The
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 a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability. ADH-like proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 326
Score = 27.5 bits (62), Expect = 7.9
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 65 GVGQVVLQVAAATGCKIC 82
GVG V +Q+A A G ++
Sbjct: 156 GVGHVAVQLAKAAGARVY 173
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
0.319 0.135 0.402
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,802,531
Number of extensions: 1312266
Number of successful extensions: 1548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1544
Number of HSP's successfully gapped: 52
Length of query: 268
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 173
Effective length of database: 6,723,972
Effective search space: 1163247156
Effective search space used: 1163247156
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 (21.7 bits)
S2: 58 (26.1 bits)