RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13753
(229 letters)
>gnl|CDD|215738 pfam00130, C1_1, Phorbol esters/diacylglycerol binding domain (C1
domain). This domain is also known as the Protein
kinase C conserved region 1 (C1) domain.
Length = 53
Score = 61.3 bits (149), Expect = 6e-13
Identities = 23/53 (43%), Positives = 27/53 (50%)
Query: 5 HQFQEYTYKKITPCDICSQVLRGHTRQGLKCRLCKTNVHVDCQEKVPAKCQPK 57
H F T+K T CD C + L G +QGLKC C NVH C VP +C
Sbjct: 1 HHFVHRTFKSPTFCDHCGEFLWGLGKQGLKCSWCGLNVHKRCHSLVPPECGCG 53
Score = 41.7 bits (98), Expect = 9e-06
Identities = 14/32 (43%), Positives = 16/32 (50%)
Query: 146 GGHTRQGLKCRLCKTNVHVDCQEKVPAKCQPK 177
G +QGLKC C NVH C VP +C
Sbjct: 22 WGLGKQGLKCSWCGLNVHKRCHSLVPPECGCG 53
>gnl|CDD|237996 cd00029, C1, Protein kinase C conserved region 1 (C1) .
Cysteine-rich zinc binding domain. Some members of this
domain family bind phorbol esters and diacylglycerol,
some are reported to bind RasGTP. May occur in tandem
arrangement. Diacylglycerol (DAG) is a second
messenger, released by activation of Phospholipase D.
Phorbol Esters (PE) can act as analogues of DAG and
mimic its downstream effects in, for example, tumor
promotion. Protein Kinases C are activated by DAG/PE,
this activation is mediated by their N-terminal
conserved region (C1). DAG/PE binding may be
phospholipid dependent. C1 domains may also mediate
DAG/PE signals in chimaerins (a family of Rac GTPase
activating proteins), RasGRPs (exchange factors for
Ras/Rap1), and Munc13 isoforms (scaffolding proteins
involved in exocytosis).
Length = 50
Score = 59.4 bits (144), Expect = 2e-12
Identities = 20/50 (40%), Positives = 29/50 (58%)
Query: 5 HQFQEYTYKKITPCDICSQVLRGHTRQGLKCRLCKTNVHVDCQEKVPAKC 54
H+F ++ K T CD+C + + G +QGL+C CK H C +KVP C
Sbjct: 1 HRFVRKSFFKPTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADKVPPSC 50
Score = 38.2 bits (89), Expect = 1e-04
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 146 GGHTRQGLKCRLCKTNVHVDCQEKVPAKC 174
G +QGL+C CK H C +KVP C
Sbjct: 22 WGLFKQGLRCSWCKVKCHKKCADKVPPSC 50
>gnl|CDD|197519 smart00109, C1, Protein kinase C conserved region 1 (C1) domains
(Cysteine-rich domains). Some bind phorbol esters and
diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Length = 50
Score = 52.1 bits (125), Expect = 1e-09
Identities = 19/50 (38%), Positives = 27/50 (54%)
Query: 5 HQFQEYTYKKITPCDICSQVLRGHTRQGLKCRLCKTNVHVDCQEKVPAKC 54
H+ T+ K T C +C + + G +QGL+C CK H C +KVP C
Sbjct: 1 HKHVFRTFTKPTFCCVCRKSIWGSFKQGLRCSECKVKCHKKCADKVPKAC 50
Score = 35.9 bits (83), Expect = 0.001
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 150 RQGLKCRLCKTNVHVDCQEKVPAKC 174
+QGL+C CK H C +KVP C
Sbjct: 26 KQGLRCSECKVKCHKKCADKVPKAC 50
>gnl|CDD|185737 cd08996, GH32_B_Fructosidase, Glycosyl hydrolase family 32,
beta-fructosidases. Glycosyl hydrolase family GH32
cleaves sucrose into fructose and glucose via
beta-fructofuranosidase activity, producing invert sugar
that is a mixture of dextrorotatory D-glucose and
levorotatory D-fructose, thus named invertase (EC
3.2.1.26). This family also contains other
fructofuranosidases such as inulinase (EC 3.2.1.7),
exo-inulinase (EC 3.2.1.80), levanase (EC 3.2.1.65), and
transfructosidases such sucrose:sucrose
1-fructosyltransferase (EC 2.4.1.99), fructan:fructan
1-fructosyltransferase (EC 2.4.1.100), sucrose:fructan
6-fructosyltransferase (EC 2.4.1.10), fructan:fructan
6G-fructosyltransferase (EC 2.4.1.243) and levan
fructosyltransferases (EC 2.4.1.-). These retaining
enzymes (i.e. they retain the configuration at anomeric
carbon atom of the substrate) catalyze hydrolysis in two
steps involving a covalent glycosyl enzyme intermediate:
an aspartate located close to the N-terminus acts as the
catalytic nucleophile and a glutamate acts as the
general acid/base; a conserved aspartate residue in the
Arg-Asp-Pro (RDP) motif stabilizes the transition state.
These enzymes are predicted to display a 5-fold
beta-propeller fold as found for GH43 and CH68. The
breakdown of sucrose is widely used as a carbon or
energy source by bacteria, fungi, and plants. Invertase
is used commercially in the confectionery industry,
since fructose has a sweeter taste than sucrose and a
lower tendency to crystallize. A common structural
feature of all these enzymes is a 5-bladed
beta-propeller domain, similar to GH43, that contains
the catalytic acid and catalytic base. A long V-shaped
groove, partially enclosed at one end, forms a single
extended substrate-binding surface across the face of
the propeller.
Length = 298
Score = 30.3 bits (69), Expect = 0.74
Identities = 19/74 (25%), Positives = 28/74 (37%), Gaps = 15/74 (20%)
Query: 77 AVPDEEGRLTLFITGIKVRLPYVVTFTRVPGSVSPGPTMRAAGKLSSHELKTYSRQNSPR 136
AV D+ G+L LF TG V T A S+ + +T+++
Sbjct: 68 AVVDDNGKLVLFYTGN------------VKLDGGRRQTQCLA--YSTDDGRTFTKYEGN- 112
Query: 137 LVVTSPGGPGGHTR 150
V+ P G H R
Sbjct: 113 PVIPPPDGYTTHFR 126
>gnl|CDD|225742 COG3201, PnuC, Nicotinamide mononucleotide transporter [Coenzyme
metabolism].
Length = 222
Score = 30.0 bits (68), Expect = 0.82
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 62 RRQKSTSEIETRVTPAVPDEEGRLTLFITGIKVRLPYVVTFTRVPGSVSPG 112
RQ ++ E V + +G L + + GI L +V + SV+P
Sbjct: 94 SRQGQRNKAEEGVIASRLKAKGWLAVLVAGIVGTLAFVSILFALGDSVAPW 144
>gnl|CDD|217210 pfam02738, Ald_Xan_dh_C2, Molybdopterin-binding domain of
aldehyde dehydrogenase.
Length = 543
Score = 30.3 bits (69), Expect = 0.93
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 70 IETRVTPAVPDEEGRLTLFIT 90
+ET AVPDE+ LT++ +
Sbjct: 47 METHGALAVPDEDDELTIYSS 67
>gnl|CDD|180142 PRK05578, PRK05578, cytidine deaminase; Validated.
Length = 131
Score = 28.0 bits (63), Expect = 2.5
Identities = 8/27 (29%), Positives = 11/27 (40%)
Query: 13 KKITPCDICSQVLRGHTRQGLKCRLCK 39
+ ++PC C QVL L L
Sbjct: 81 EPLSPCGRCRQVLAEFGGPDLLVTLVA 107
>gnl|CDD|211330 cd02556, PseudoU_synth_RluB, Pseudouridine synthase, Escherichia
coli RluB like. This group is comprised of bacterial
and eukaryotic proteins similar to E. coli RluB.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required.
E.coli RluB makes psi2605 in 23S RNA. psi2605 has been
detected in eubacteria but, not in eukarya and archea
despite the presence of a precursor U at that site.
Length = 167
Score = 28.0 bits (63), Expect = 2.6
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 179 RLLRRQKSTSEIETRVTPAAPDEEGRPLFITGIIKVRLPYVVTFTRL 225
R+L K I TR D +GRP + K+ +P ++ RL
Sbjct: 1 RVLIYHKPEGLICTR-----KDPKGRPTVFDLLPKLGIPRWISVGRL 42
>gnl|CDD|237860 PRK14939, gyrB, DNA gyrase subunit B; Provisional.
Length = 756
Score = 28.5 bits (65), Expect = 3.0
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 45 DCQEKVPAKC 54
DCQEK PA
Sbjct: 410 DCQEKDPALS 419
Score = 28.5 bits (65), Expect = 3.0
Identities = 7/10 (70%), Positives = 7/10 (70%)
Query: 165 DCQEKVPAKC 174
DCQEK PA
Sbjct: 410 DCQEKDPALS 419
>gnl|CDD|239231 cd02903, Macro_BAL_like, Macro domain, BAL_like family. The macro
domain is a high-affinity ADP-ribose binding module
found in a variety of proteins as a stand-alone domain
or in combination with other domains like in histone
macroH2A and some PARPs (poly ADP-ribose polymerases).
Some macro domains recognize poly ADP-ribose as a
ligand. Previously identified as displaying an Appr-1"-p
(ADP-ribose-1"-monophosphate) processing activity, the
macro domain may play roles in distinct ADP-ribose
pathways, such as the ADP-ribosylation of proteins, an
important post-translational modification which occurs
in DNA repair, transcription, chromatin biology, and
long-term memory formation, among other processes.
Members of this family show similarity to BAL
(B-aggressive lymphoma) proteins, which contain one to
three macro domains. Most BAL family macro domains
belong to this family except for the most N-terminal
domain in multiple-domain containing proteins. Most BAL
proteins also contain a C-terminal PARP active site and
are also named as PARPs. Human BAL1 (or PARP-9) was
originally identified as a risk-related gene in diffuse
large B-cell lymphoma that promotes malignant B-cell
migration. Some BAL family proteins exhibit PARP
activity. Poly (ADP-ribosyl)ation is an immediate
DNA-damage-dependent post-translational modification of
histones and other nuclear proteins. BAL proteins may
also function as transcription repressors.
Length = 137
Score = 27.6 bits (62), Expect = 3.7
Identities = 12/61 (19%), Positives = 17/61 (27%), Gaps = 10/61 (16%)
Query: 115 MRAAGKLSSHELKTYSRQNSPRLVVTSPGGPGGHTRQGLKCRLCKTNVHVDCQEKVPAKC 174
+R AG EL + V+ + GG CK HV
Sbjct: 38 LRKAGPELQKELDKAKLGQTVGSVIVTKGG----------NLPCKYVYHVVLPNWSNGAL 87
Query: 175 Q 175
+
Sbjct: 88 K 88
>gnl|CDD|233518 TIGR01665, put_anti_recept, phage minor structural protein,
N-terminal region. This model represents the conserved
N-terminal region, typically from about residue 25 to
about residue 350, of a family of uncharacterized phage
proteins 500 to 1700 residues in length [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 316
Score = 27.8 bits (62), Expect = 4.4
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 181 LRRQKSTSEIETRVTPAAPDEEGRPLFITGIIKVRLPYVVTFTRL 225
L R++ T I TR+ P E + L I Y+V R
Sbjct: 175 LNRKEDTKNIVTRLIPFGKGEGEKGLTIESSNVG-DEYIVDKDRQ 218
>gnl|CDD|219497 pfam07649, C1_3, C1-like domain. This short domain is rich in
cysteines and histidines. The pattern of conservation
is similar to that found in pfam00130.
Length = 30
Score = 25.0 bits (55), Expect = 5.4
Identities = 8/30 (26%), Positives = 10/30 (33%), Gaps = 2/30 (6%)
Query: 17 PCDICSQVLRGHTRQGLKCRLCKTNVHVDC 46
C+ C L C C +H DC
Sbjct: 2 TCNAC--GLPIDGDPFYSCSECDFVLHEDC 29
>gnl|CDD|214584 smart00249, PHD, PHD zinc finger. The plant homeodomain (PHD)
finger is a C4HC3 zinc-finger-like motif found in
nuclear proteins thought to be involved in epigenetics
and chromatin-mediated transcriptional regulation. The
PHD finger binds two zinc ions using the so-called
'cross-brace' motif and is thus structurally related to
the RING finger and the FYVE finger. It is not yet
known if PHD fingers have a common molecular function.
Several reports suggest that it can function as a
protein-protein interacton domain and it was recently
demonstrated that the PHD finger of p300 can cooperate
with the adjacent BROMO domain in nucleosome binding in
vitro. Other reports suggesting that the PHD finger is
a ubiquitin ligase have been refuted as these domains
were RING fingers misidentified as PHD fingers.
Length = 47
Score = 24.9 bits (54), Expect = 7.6
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 2/29 (6%)
Query: 18 CDICSQVLRGHTRQGLKCRLCKTNVHVDC 46
C +C + + L+C C H C
Sbjct: 2 CSVCGK--PDDGGELLQCDGCDRWYHQTC 28
>gnl|CDD|218168 pfam04602, Arabinose_trans, Mycobacterial cell wall arabinan
synthesis protein. Arabinosyltransferase is involved in
arabinogalactan (AG) biosynthesis pathway in
mycobacteria. AG is a component of the macromolecular
assembly of the mycolyl-AG-peptidoglycan complex of the
cell wall. This enzyme has important clinical
applications as it is believed to be the target of the
antimycobacterial drug Ethambutol.
Length = 1075
Score = 27.4 bits (61), Expect = 7.9
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 89 ITGIKVRLPYVVTFTRVP--GSVSPGPTMRAAGKLSSHELKTYSRQNSPRLVVTSPG 143
I G +V LPY + R P GS G A + ++L Q+ P +VVT+ G
Sbjct: 804 INGSRVPLPYGLDPARTPVMGSYGEGAQQAARLTSAWYQLPD-RTQDRPLVVVTAAG 859
>gnl|CDD|233371 TIGR01354, cyt_deam_tetra, cytidine deaminase, homotetrameric.
This small, homotetrameric zinc metalloprotein is found
in humans and most bacteria. A related, homodimeric
form with a much larger subunit is found in E. coli and
in Arabidopsis. Both types may act on deoxycytidine as
well as cytidine [Purines, pyrimidines, nucleosides,
and nucleotides, Salvage of nucleosides and
nucleotides].
Length = 127
Score = 26.1 bits (58), Expect = 8.9
Identities = 6/22 (27%), Positives = 8/22 (36%)
Query: 13 KKITPCDICSQVLRGHTRQGLK 34
++PC C QVL
Sbjct: 78 DSVSPCGACRQVLAEFCGPDTP 99
>gnl|CDD|238164 cd00264, BPI, BPI/LBP/CETP domain; Bactericidal
permeability-increasing protein (BPI) /
Lipopolysaccharide-binding protein (LBP) / Cholesteryl
ester transfer protein (CETP) domain; binds to and
neutralizes lipopolysaccharides from the outer membrane
of Gram-negative bacteria.; Apolar pockets on the
concave surface bind a molecule of phosphatidylcholine,
primarily by interacting with their acyl chains; this
suggests that the pockets may also bind the acyl chains
of lipopolysaccharide.
Length = 208
Score = 26.6 bits (59), Expect = 9.9
Identities = 9/75 (12%), Positives = 25/75 (33%)
Query: 22 SQVLRGHTRQGLKCRLCKTNVHVDCQEKVPAKCQPKSRLLRRQKSTSEIETRVTPAVPDE 81
+ L+ + +L + + + + + E+E + + +
Sbjct: 56 NLQLKILSLSSPTLKLSPKGLDLSQSVSIELFVTWPASDGGNPLFSLEVEISASLQLSVD 115
Query: 82 EGRLTLFITGIKVRL 96
GRLTL ++ +
Sbjct: 116 PGRLTLSLSLCSSTV 130
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 0.134 0.405
Gapped
Lambda K H
0.267 0.0598 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,226,942
Number of extensions: 1000859
Number of successful extensions: 727
Number of sequences better than 10.0: 1
Number of HSP's gapped: 727
Number of HSP's successfully gapped: 26
Length of query: 229
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 135
Effective length of database: 6,768,326
Effective search space: 913724010
Effective search space used: 913724010
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: 57 (26.0 bits)