RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4206
(97 letters)
>gnl|CDD|238974 cd02016, TPP_E1_OGDC_like, Thiamine pyrophosphate (TPP) family, E1
of OGDC-like subfamily, TPP-binding module; composed of
proteins similar to the E1 component of the
2-oxoglutarate dehydrogenase multienzyme complex (OGDC).
OGDC catalyzes the oxidative decarboxylation of
2-oxoglutarate to succinyl-CoA and carbon dioxide, a key
reaction of the tricarboxylic acid cycle.
Length = 265
Score = 106 bits (267), Expect = 7e-30
Identities = 46/91 (50%), Positives = 57/91 (62%), Gaps = 4/91 (4%)
Query: 1 MVFGSAHRGRLNLLTNIVHAPLVNVFSRF---LPLEYTDPGDGDVKYHLGAYVKYRTPHS 57
+V G AHRGRLN+L N++ PL +FS F D G GDVKYHLG +TP S
Sbjct: 42 VVIGMAHRGRLNVLANVLGKPLEQIFSEFEGKSEFPEDDEGSGDVKYHLGYSSDRKTP-S 100
Query: 58 DKLMTLTLSSNPSHLELVYPVNLGKTKAFQF 88
K + L+L+ NPSHLE V PV +GKT+A Q
Sbjct: 101 GKKVHLSLAPNPSHLEAVNPVVMGKTRAKQD 131
>gnl|CDD|236499 PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component;
Reviewed.
Length = 924
Score = 101 bits (255), Expect = 1e-26
Identities = 39/89 (43%), Positives = 51/89 (57%), Gaps = 4/89 (4%)
Query: 1 MVFGSAHRGRLNLLTNIVHAPLVNVFSRFLPLEYTDP--GDGDVKYHLGAYVKYRTPHSD 58
+V G AHRGRLN+L N++ P ++F+ F D G GDVKYHLG T
Sbjct: 245 IVIGMAHRGRLNVLVNVLGKPPRDLFAEFEGKHGPDEVLGSGDVKYHLGFSSDRETDG-- 302
Query: 59 KLMTLTLSSNPSHLELVYPVNLGKTKAFQ 87
+ L+L+ NPSHLE+V PV G +A Q
Sbjct: 303 GEVHLSLAFNPSHLEIVNPVVEGSVRARQ 331
>gnl|CDD|223641 COG0567, SucA, 2-oxoglutarate dehydrogenase complex, dehydrogenase
(E1) component, and related enzymes [Energy production
and conversion].
Length = 906
Score = 96.6 bits (241), Expect = 6e-25
Identities = 37/86 (43%), Positives = 48/86 (55%), Gaps = 2/86 (2%)
Query: 2 VFGSAHRGRLNLLTNIVHAPLVNVFSRFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDKLM 61
V G AHRGRLN+L N++ P ++F F GDVKYHLG +T +
Sbjct: 232 VIGMAHRGRLNVLVNVLGKPYRDIFDEFEGKSAEPDLSGDVKYHLGFSSDRQTD--GGKV 289
Query: 62 TLTLSSNPSHLELVYPVNLGKTKAFQ 87
L+L+ NPSHLE+V PV G +A Q
Sbjct: 290 HLSLAFNPSHLEIVNPVVEGSVRAKQ 315
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 89.2 bits (222), Expect = 3e-22
Identities = 43/91 (47%), Positives = 53/91 (58%), Gaps = 9/91 (9%)
Query: 2 VFGSAHRGRLNLLTNIVHAPLVNVFSRFLPLE-YTDP----GDGDVKYHLGAYVKYRTPH 56
V G AHRGRLN+L NIV P +F F E DP G GDVKYHLGA +
Sbjct: 550 VIGMAHRGRLNVLANIVGKPYSQIFREF---EGNLDPRSAQGSGDVKYHLGAEGTFTQMF 606
Query: 57 SDKLMTLTLSSNPSHLELVYPVNLGKTKAFQ 87
D+ + ++L++NPSHLE V PV G +A Q
Sbjct: 607 GDE-IKVSLAANPSHLEAVDPVLEGIVRAKQ 636
>gnl|CDD|161785 TIGR00239, 2oxo_dh_E1, 2-oxoglutarate dehydrogenase, E1 component.
The 2-oxoglutarate dehydrogenase complex consists of
this thiamine pyrophosphate-binding subunit (E1),
dihydrolipoamide succinyltransferase (E2), and lipoamide
dehydrogenase (E3). The E1 ortholog from Corynebacterium
glutamicum is unusual in having an N-terminal extension
that resembles the dihydrolipoamide succinyltransferase
(E2) component of 2-oxoglutarate dehydrogenase [Energy
metabolism, TCA cycle].
Length = 929
Score = 82.2 bits (203), Expect = 7e-20
Identities = 40/89 (44%), Positives = 54/89 (60%), Gaps = 3/89 (3%)
Query: 1 MVFGSAHRGRLNLLTNIVHAPLVNVFSRFL--PLEYTDPGDGDVKYHLGAYVKYRTPHSD 58
+V G AHRGRLN+L N++ P ++FS F + G GDVKYH+G + T
Sbjct: 245 VVLGMAHRGRLNVLVNVLGKPPEDIFSEFAGKHKSHLPDGTGDVKYHMGRFSSDFTT-DG 303
Query: 59 KLMTLTLSSNPSHLELVYPVNLGKTKAFQ 87
KL+ L L+ NPSHLE+V PV +G T+A
Sbjct: 304 KLVHLALAFNPSHLEIVSPVVIGSTRARL 332
>gnl|CDD|131777 TIGR02730, carot_isom, carotene isomerase. Members of this family,
including sll0033 (crtH) of Synechocystis sp. PCC 6803,
catalyze a cis-trans isomerization of carotenes to the
all-trans lycopene, a reaction that can also occur
non-enzymatically in light through photoisomerization
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 493
Score = 28.6 bits (64), Expect = 0.45
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 1 MVFGSAHRGRLNLLTNIVHAPLVNVFSRFLP----LEYTDPGDGDVKYH 45
M+FG +G NLLT + A V +P + Y P +VK H
Sbjct: 55 MIFGFGDKGTTNLLTRALAA--VGRKLETIPDPVQIHYHLPNGLNVKVH 101
>gnl|CDD|235657 PRK05967, PRK05967, cystathionine beta-lyase; Provisional.
Length = 395
Score = 27.9 bits (62), Expect = 0.88
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 31 PLEYTDPGDGDVKYHLGAYVKYRTPHSDKLMTLTLSSNPSHLELVYPVN 79
PL Y P D V + A KY + HSD L+ T+S+N + +
Sbjct: 191 PL-YFRPLDFGVDISIHAATKYPSGHSDILLG-TVSANEKCWPQLLEAH 237
>gnl|CDD|235052 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta';
Provisional.
Length = 1331
Score = 26.1 bits (58), Expect = 2.9
Identities = 7/23 (30%), Positives = 9/23 (39%), Gaps = 1/23 (4%)
Query: 37 PGDGDVKYHLGAYV-KYRTPHSD 58
P G V++ YRT H
Sbjct: 351 PFAGTVEFGKKLRTRPYRTRHGV 373
>gnl|CDD|130391 TIGR01324, cysta_beta_ly_B, cystathionine beta-lyase, bacterial.
This model represents cystathionine beta-lyase
(alternate name: beta-cystathionase), one of several
pyridoxal-dependent enzymes of cysteine, methionine, and
homocysteine metabolism. This enzyme is involved in the
biosynthesis of Met from Cys [Amino acid biosynthesis,
Aspartate family].
Length = 377
Score = 26.0 bits (57), Expect = 3.1
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 12/69 (17%)
Query: 8 RGRLNLLTNIVHAPLVNVFSRFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDKLMTLTLSS 67
G + ++ N A L+ F PLE+ V + A KY HSD ++ T+ +
Sbjct: 164 PGIVIMIDNTWAAGLL-----FKPLEH------GVDISIQAGTKYLVGHSDIMIG-TVVA 211
Query: 68 NPSHLELVY 76
N + +
Sbjct: 212 NARTWDQLR 220
>gnl|CDD|193475 pfam13002, LDB19, Arrestin_N terminal like. This is a family of
proteins related to the Arrestin_N terminal family.
Length = 183
Score = 25.6 bits (56), Expect = 3.8
Identities = 21/78 (26%), Positives = 27/78 (34%), Gaps = 17/78 (21%)
Query: 12 NLLTNIVHAPLVNVFSRFLPLEYTDPGD---------GDVKYHLGAYVKYRTPHSDKLMT 62
++ N V S P Y PG VKY L A V Y+TP
Sbjct: 33 DIQKNTTDLS---VGSHSYPFSYLFPGSLPASTSNSETQVKYELIATVTYKTPRRG---- 85
Query: 63 LTLSSNPSHLELVYPVNL 80
S P L+L P+ +
Sbjct: 86 -ISPSKPQLLKLNMPIAV 102
>gnl|CDD|236297 PRK08573, PRK08573, phosphomethylpyrimidine kinase; Provisional.
Length = 448
Score = 25.5 bits (56), Expect = 5.3
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 41 DVKYHLGAYVKYRTP 55
DV YH G + ++R P
Sbjct: 185 DVLYHNGTFREFRAP 199
>gnl|CDD|100087 cd03085, PGM1, Phosphoglucomutase 1 (PGM1) catalyzes the
bidirectional interconversion of glucose-1-phosphate
(G-1-P) and glucose-6-phosphate (G-6-P) via a glucose
1,6-diphosphate intermediate, an important metabolic
step in prokaryotes and eukaryotes. In one direction,
G-1-P produced from sucrose catabolism is converted to
G-6-P, the first intermediate in glycolysis. In the
other direction, conversion of G-6-P to G-1-P generates
a substrate for synthesis of UDP-glucose which is
required for synthesis of a variety of cellular
constituents including cell wall polymers and
glycoproteins. The PGM1 family also includes a
non-enzymatic PGM-related protein (PGM-RP) thought to
play a structural role in eukaryotes, as well as
pp63/parafusin, a phosphoglycoprotein that plays an
important role in calcium-regulated exocytosis in
ciliated protozoans. PGM1 belongs to the
alpha-D-phosphohexomutase superfamily which includes
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 domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 548
Score = 25.3 bits (56), Expect = 6.6
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 33 EYTDPGDGDVKYHLGAYVKY 52
YTDP DG V G + +
Sbjct: 461 SYTDPVDGSVSKKQGLRIIF 480
>gnl|CDD|153329 cd07645, I-BAR_IMD_BAIAP2L1, Inverse (I)-BAR, also known as the
IRSp53/MIM homology Domain (IMD), of Brain-specific
Angiogenesis Inhibitor 1-Associated Protein 2-Like 1.
The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs
(I-BAR) domain, is a dimerization and lipid-binding
module that bends membranes and induces membrane
protrusions. BAIAP2L1 (Brain-specific Angiogenesis
Inhibitor 1-Associated Protein 2-Like 1) is also known
as IRTKS (Insulin Receptor Tyrosine Kinase Substrate).
It is widely expressed, serves as a substrate for the
insulin receptor, and binds the small GTPase Rac. It
plays a role in regulating the actin cytoskeleton and
colocalizes with F-actin, cortactin, VASP, and vinculin.
BAIAP2L1 expression leads to the formation of short
actin bundles, distinct from filopodia-like protrusions
induced by the expression of the related protein IRSp53.
It contains an N-terminal IMD, an SH3 domain, and a WASP
homology 2 (WH2) actin-binding motif at the C-terminus.
The IMD domain of BAIAP2L1 binds and bundles actin
filaments, and binds the small GTPase Rac.
Length = 226
Score = 25.3 bits (55), Expect = 6.7
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 26 FSRFLPLEYTDPGDGDVKYHLGAYVKYRTPHSDKLMTLTLS 66
F R + E D DVKY +Y+T H +KL +L S
Sbjct: 91 FHREIIAELERKTDLDVKYMTATLKRYQTEHKNKLDSLEKS 131
>gnl|CDD|173669 cd05578, STKc_Yank1, Catalytic domain of the Protein
Serine/Threonine Kinase, Yank1. Serine/Threonine
Kinases (STKs), Yank1 or STK32A subfamily, catalytic
(c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Yank1 subfamily is
part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and
phosphoinositide 3-kinase. This subfamily contains
uncharacterized STKs with similarity to the human
protein designated Yank1 or STK32A.
Length = 258
Score = 25.0 bits (55), Expect = 8.3
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 11 LNLLTNIVHAPLVNVFSRFLPLEY----TD-PGDGDVKYHLGAYVKY 52
+L + H LVN++ F E D GD++YHL VK+
Sbjct: 51 RRILQELNHPFLVNLWYSFQDEENMYLVVDLLLGGDLRYHLSQKVKF 97
>gnl|CDD|222764 pfam14460, Prok-E2_D, Prokaryotic E2 family D. A member of the
E2/UBC superfamily of proteins found in several
bacteria. Members of this family lack the conserved
histidine of the classical E2-fold. However, they have
an absolutely conserved histidine carboxyl-terminal to
the conserved cysteine. Members of this family are
usually present in a conserved gene neighborhood with
genes encoding members of the Ub modification pathway
such as the E1, Ub and JAB proteins. These neighborhoods
also contain a gene encoding a rapidly diverging
alpha-helical protein.
Length = 176
Score = 24.7 bits (54), Expect = 9.4
Identities = 8/28 (28%), Positives = 10/28 (35%)
Query: 1 MVFGSAHRGRLNLLTNIVHAPLVNVFSR 28
VF R T + AP NV+
Sbjct: 77 RVFAVKGSERPTPDTKLYQAPYFNVWED 104
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
0.322 0.139 0.414
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,850,048
Number of extensions: 385915
Number of successful extensions: 262
Number of sequences better than 10.0: 1
Number of HSP's gapped: 253
Number of HSP's successfully gapped: 22
Length of query: 97
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 33
Effective length of database: 8,098,946
Effective search space: 267265218
Effective search space used: 267265218
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 (21.9 bits)
S2: 53 (24.3 bits)