RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9636
(181 letters)
>gnl|CDD|114591 pfam05873, Mt_ATP-synt_D, ATP synthase D chain, mitochondrial
(ATP5H). This family consists of several ATP synthase D
chain, mitochondrial (ATP5H) proteins. Subunit d has no
extensive hydrophobic sequences, and is not apparently
related to any subunit described in the simpler ATP
synthases in bacteria and chloroplasts.
Length = 160
Score = 148 bits (376), Expect = 3e-46
Identities = 74/160 (46%), Positives = 105/160 (65%)
Query: 2 AARRFTGSKINWSELTSRLTDADRPNFNTFKAKYDGYLRKVSALPEAPPKIDWALYKNKI 61
AARR S INWS L R+ + FN FK+K + Y +V+ LPE PP IDWA YK +
Sbjct: 1 AARRVALSSINWSALAERVPPNQKAEFNAFKSKSETYQSRVAQLPEKPPAIDWAYYKKNV 60
Query: 62 PVPGLVDQFQKQYEALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAGYKKEIED 121
P GLVD F+K+YEAL++P+P+D TA+++ EEK+ + I ++ +S RI Y+KE+E
Sbjct: 61 PKAGLVDSFEKKYEALKVPYPEDKYTAQVDAEEKEDVKRIAEYKTKSADRIQEYEKELEK 120
Query: 122 EEALPPVSEMTMQEYCLAYPECAYDPEKPTFWPHDEENQI 161
+ + P +MTM+++ A+PE A D KPTFWPH E Q+
Sbjct: 121 WKNMIPYDQMTMEDFNEAFPETALDLNKPTFWPHTPEEQL 160
>gnl|CDD|226026 COG3495, COG3495, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 166
Score = 28.8 bits (64), Expect = 1.1
Identities = 20/82 (24%), Positives = 31/82 (37%), Gaps = 12/82 (14%)
Query: 80 PFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAGYKKEIEDEEALPPVSEMTMQEYCLA 139
P D A E Q + + K ++ S ++ GY +E + L V+E + Y
Sbjct: 44 QQPHDMPDANGGEPASQQIPTVVKELDGSATKLPGYAVPLERDGKL--VTEFLLVPY--- 98
Query: 140 YPECAYDPEKPTFWPHDEENQI 161
C + P P NQI
Sbjct: 99 TGACIHVPPPPP-------NQI 113
>gnl|CDD|235491 PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional.
Length = 330
Score = 28.1 bits (64), Expect = 2.3
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 10/47 (21%)
Query: 90 INEEEKQTMAEI----------KKWIEESQVRIAGYKKEIEDEEALP 126
I EE K+ M E+ K+WI E++ +K +E P
Sbjct: 267 ITEETKKEMKEVLKDIQSGEFAKEWILENKAGRPTFKALRREEAEHP 313
>gnl|CDD|235206 PRK04031, PRK04031, DNA primase; Provisional.
Length = 408
Score = 28.2 bits (64), Expect = 2.5
Identities = 13/70 (18%), Positives = 30/70 (42%), Gaps = 2/70 (2%)
Query: 52 IDWALYKNKIPVPGLVDQFQKQYEALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVR 111
I AL +NK+PV +++ K+ + ++ E + E+ E K+ +
Sbjct: 256 IAKAL-RNKVPVEQYLEELGKKAQKAAEKVKEEEEKPEKEPAEQPE-PEEKEPAPVPAEK 313
Query: 112 IAGYKKEIED 121
++ I++
Sbjct: 314 EETVREHIKE 323
>gnl|CDD|193545 cd05669, M20_Acy1_YxeP_like, M20 Peptidase Aminoacyclase-1
YxeP-like proteins, including YxeP, YtnL, YjiB and
HipO2. Peptidase M20 family, Aminoacyclase-1 YxeP-like
subfamily including YxeP, YtnL, YjiB and HipO2, most of
which have not been well characterized to date.
N-terminal acetylation of proteins is a widespread and
highly conserved process that is involved in the
protection and stability of proteins. Several types of
aminoacylases can be distinguished on the basis of
substrate specificity; substrates include indoleacetic
acid (IAA) N-conjugates of amino acids, N-acetyl-L-amino
acids and aminobenzoylglutamate. ACY1 breaks down
cytosolic aliphatic N-acyl-alpha-amino acids (except
L-aspartate), especially N-acetyl-methionine and
acetyl-glutamate into L-amino acids and an acyl group.
However, ACY1 can also catalyze the reverse reaction,
the synthesis of acetylated amino acids. ACY1 may also
play a role in xenobiotic bioactivation as well as in
the inter-organ processing of amino acid-conjugated
xenobiotic derivatives
(S-substituted-N-acetyl-L-cysteine). ACY1 appears to
physically interact with Sphingosine kinase type 1
(SphK1) and may influence its physiological functions;
SphK1 and its product sphingosine-1-phosphate have been
shown to promote cell growth and inhibit apoptosis of
tumor cells. Strong expression of the human gene and its
mouse ortholog Acy1 in brain, liver, and kidney suggest
a role of the enzyme in amino acid metabolism of these
organs.
Length = 372
Score = 28.4 bits (64), Expect = 2.6
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 90 INEEEKQTMAEIKKWIEESQVRIAGY 115
++ +E +T A+I+ W+EE +RI
Sbjct: 19 LSNQEFETTAKIRDWLEELGIRILDL 44
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 28.0 bits (62), Expect = 2.8
Identities = 23/55 (41%), Positives = 31/55 (56%), Gaps = 8/55 (14%)
Query: 71 QKQYEALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAGYKKEIEDEEAL 125
QKQ EA +P P DT + K E+KQ K+ IE++Q+ I + DEEAL
Sbjct: 252 QKQQEAKNLPKPADTSSPK---EDKQVAENQKREIEKAQIEI-----KKNDEEAL 298
>gnl|CDD|205692 pfam13514, AAA_27, AAA domain. This domain is found in a number of
double-strand DNA break proteins. This domain contains a
P-loop motif.
Length = 1118
Score = 27.8 bits (62), Expect = 3.5
Identities = 15/73 (20%), Positives = 32/73 (43%), Gaps = 13/73 (17%)
Query: 65 GLVDQFQKQYEALQIPFPQDTETAKINEEEKQTMAEIKKW-------------IEESQVR 111
+ D+ +K+ + L P + E +E K+ AEI++ ++E++
Sbjct: 130 SVRDELEKEADELWKPRGRKPEINVALKELKELEAEIREVQLKTRTWKDLVKALDEAEEE 189
Query: 112 IAGYKKEIEDEEA 124
+A +KE+ E
Sbjct: 190 LANLRKELRQLEK 202
>gnl|CDD|218453 pfam05131, Pep3_Vps18, Pep3/Vps18/deep orange family. This region
is found in a number of protein identified as involved
in golgi function and vacuolar sorting. The molecular
function of this region is unknown. The members of this
family contain a C-terminal ring finger domain.
Length = 147
Score = 26.8 bits (60), Expect = 4.3
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 146 DPEKPTFWPHDEEN----QITKEDEEWW 169
DP K TFW + +N + ED + W
Sbjct: 83 DPVKNTFWLYTAQNIFEIVVEDEDRDVW 110
>gnl|CDD|213014 cd12081, SH3_CASK, Src Homology 3 domain of
Calcium/calmodulin-dependent Serine protein Kinase.
CASK is a scaffolding protein that is highly expressed
in the mammalian nervous system and plays roles in
synaptic protein targeting, neural development, and gene
expression regulation. CASK interacts with many
different binding partners including parkin, neurexin,
syndecans, calcium channel proteins, caskin, among
others, to perform specific functions in different
subcellular locations. Disruption of the CASK gene in
mice results in neonatal lethality while mutations in
the human gene have been associated with X-linked mental
retardation. Drosophila CASK is associated with both
pre- and postsynaptic membranes and is crucial in
synaptic transmission and vesicle cycling. CASK contains
an N-terminal calmodulin-dependent kinase (CaMK)-like
domain, two L27 domains, followed by the core of three
domains characteristic of MAGUK (membrane-associated
guanylate kinase) proteins: PDZ, SH3, and guanylate
kinase (GuK). In addition, it also contains the Hook
(Protein 4.1 Binding) motif in between the SH3 and GuK
domains. The GuK domain in MAGUK proteins is
enzymatically inactive; instead, the domain mediates
protein-protein interactions and associates
intramolecularly with the SH3 domain. SH3 domains are
protein interaction domains that bind to proline-rich
ligands with moderate affinity and selectivity,
preferentially to PxxP motifs. They play versatile and
diverse roles in the cell including the regulation of
enzymes, changing the subcellular localization of
signaling pathway components, and mediating the
formation of multiprotein complex assemblies.
Length = 62
Score = 25.6 bits (56), Expect = 4.7
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 161 ITKEDEEWWEKRQKNLVGG 179
I+K+D WW+ + +N G
Sbjct: 34 ISKDDHNWWQAKLENSKNG 52
>gnl|CDD|176869 cd08860, TcmN_ARO-CYC_like, N-terminal aromatase/cyclase domain of
the multifunctional protein tetracenomycin (TcmN) and
related domains. This family includes the N-terminal
aromatase/cyclase (ARO/CYC) domain of Streptomyces
glaucescens TcmN, and related domains. It belongs to the
SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. ARO/CYC domains participate in the
diversification of aromatic polyketides by promoting
polyketide cyclization. They occur in two architectural
forms, monodomain and didomain. Monodomain
aromatase/cyclases have a single ARO/CYC domain. For
some, such as TcmN, this single domain is linked to a
second domain of unrelated function. TcmN is a
multifunctional cyclase-dehydratase-O-methyl
transferase. Its N-terminal ARO/CYC domain participates
in polyketide binding and catalysis; it promotes C9-C14
first-ring (and C7-C16 second-ring) cyclizations. Its
C-terminal domain has O-methyltransferase activity.
Didomain aromatase/cyclases contain two ARO/CYC domains,
and they biosynthesize C7-C12 first ring cyclized
polyketides. These latter domains belong to a different
subfamily in the SRPBCC superfamily.
Length = 146
Score = 26.7 bits (59), Expect = 4.9
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 80 PFPQDTETAKINEEEKQTMAEIKKWIEE 107
P T ++N + MA IKK IE
Sbjct: 117 PVDDAAMTDRLNTNTRAQMARIKKKIEA 144
>gnl|CDD|227847 COG5560, UBP12, Ubiquitin C-terminal hydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 823
Score = 27.5 bits (61), Expect = 5.0
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 148 EKPTFWPHDEENQITKEDEEWWEKRQKN 175
KP P D+ K E WWE ++N
Sbjct: 383 SKPDLSPGDDVVVKKKAKECWWEHLKRN 410
>gnl|CDD|226404 COG3887, COG3887, Predicted signaling protein consisting of a
modified GGDEF domain and a DHH domain [Signal
transduction mechanisms].
Length = 655
Score = 27.3 bits (61), Expect = 5.6
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 8/41 (19%)
Query: 12 NWSELTSRLTDADRPNFNTFKA--------KYDGYLRKVSA 44
N+ E+T L+D+DR N+F +Y+ +LR+ S+
Sbjct: 184 NYDEVTQGLSDSDRSQINSFVTSFLEEWATEYNIFLRRYSS 224
>gnl|CDD|212925 cd11992, SH3_Intersectin2_3, Third Src homology 3 domain (or SH3C)
of Intersectin-2. Intersectin-2 (ITSN2) is an adaptor
protein that functions in exo- and endocytosis, actin
cytoskeletal reorganization, and signal transduction. It
plays a role in clathrin-coated pit (CCP) formation. It
binds to many proteins through its multidomain structure
and facilitate the assembly of multimeric complexes.
ITSN2 also functions as a specific GEF for Cdc42
activation in epithelial morphogenesis, and is required
in mitotic spindle orientation. It exists in
alternatively spliced short and long isoforms. The short
isoform contains two Eps15 homology domains (EH1 and
EH2), a coiled-coil region and five SH3 domains
(SH3A-E), while the long isoform, in addition, contains
RhoGEF (also called Dbl-homologous or DH), Pleckstrin
homology (PH) and C2 domains. The third SH3 domain
(SH3C) of ITSN2 has been shown to bind the K15 protein
of Kaposi's sarcoma-associated herpesvirus. SH3 domains
are protein interaction domains that bind to
proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 52
Score = 25.0 bits (54), Expect = 6.3
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 135 EYCLAYPECAYDPEKPTFWPHDEENQITKEDEEWWEKRQKNLVG 178
EY YP + +P TF EE +T++D EWW ++ G
Sbjct: 1 EYIALYPYSSSEPGDLTF-NEGEEILVTQKDGEWWTGSIEDRTG 43
>gnl|CDD|240328 PTZ00247, PTZ00247, adenosine kinase; Provisional.
Length = 345
Score = 26.9 bits (60), Expect = 6.7
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 91 NEEEKQTMAEIKKW----IEESQVRIAGYKKE 118
NEEE +T A+ KW ++E RIA K
Sbjct: 221 NEEEAKTFAKAMKWDTEDLKEIAARIAMLPKY 252
>gnl|CDD|161659 TIGR00005, rluA_subfam, pseudouridine synthase, RluA family. In E.
coli, RluD (SfhB) modifies uridine to pseudouridine at
23S RNA U1911, 1915, and 1917, RluC modifies 955, 2504
and 2580, and RluA modifies U746 and tRNA U32. An
additional homolog from E. coli outside this family,
TruC (SP|Q46918), modifies uracil-65 in transfer RNAs to
pseudouridine [Protein synthesis, tRNA and rRNA base
modification].
Length = 299
Score = 26.9 bits (60), Expect = 7.0
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 20/74 (27%)
Query: 101 IKKWIEESQVRI-----AGYKKEIEDEEALPPVSEMTMQEYCLAYPECAYDPEKPTFWPH 155
I+K IE QV++ A K +++D + + + E+ P
Sbjct: 24 IQKLIENGQVKVNGKVTANPKLKVKDGDRITVRVP---------------EEEEHEVPPQ 68
Query: 156 DEENQITKEDEEWW 169
D I EDE+
Sbjct: 69 DIPLDILFEDEDII 82
>gnl|CDD|214607 smart00307, ILWEQ, I/LWEQ domain. Thought to possess an F-actin
binding function.
Length = 200
Score = 26.6 bits (59), Expect = 7.2
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 5/68 (7%)
Query: 72 KQYEALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAGYKKEIEDEEALPPVSEM 131
++ I + E + K ++ E K E QV I K E E E A ++E+
Sbjct: 138 AAVKSGMIFDEEQEEEE---DFSKLSLHEGKTQEMEQQVEI--LKLENELEAARKKLAEI 192
Query: 132 TMQEYCLA 139
Q Y LA
Sbjct: 193 RKQHYELA 200
>gnl|CDD|173740 cd07842, STKc_CDK8_like, Catalytic domain of Cyclin-Dependent
protein Kinase 8-like Serine/Threonine Kinases.
Serine/Threonine Kinases (STKs), Cyclin-Dependent
protein Kinase 8 (CDK8)-like subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The CDK8-like 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. CDKs belong to a large family of STKs that are
regulated by their cognate cyclins. Together, they are
involved in the control of cell-cycle progression,
transcription, and neuronal function. This subfamily is
composed of CDK8, CDC2L6, and similar proteins. CDK8
functions as a negative or positive regulator of
transcription, depending on the scenario. Together with
its regulator, cyclin C, it reversibly associates with
the multi-subunit core Mediator complex, a cofactor that
is involved in regulating RNA polymerase II (RNAP
II)-dependent transcription. CDC2L6 also associates with
Mediator in complexes lacking CDK8. In VP16-dependent
transcriptional activation, CDK8 and CDC2L6 exerts
opposing effects by positive and negative regulation,
respectively, in similar conditions.
Length = 316
Score = 26.9 bits (60), Expect = 7.3
Identities = 23/92 (25%), Positives = 33/92 (35%), Gaps = 10/92 (10%)
Query: 58 KNKIPVPGLVDQFQKQYEALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAGYKK 117
K K P DQ ++ +E L P +D K E T+ + K +A +
Sbjct: 222 KIKKSNPFQRDQLERIFEVLGTPTEKDWPDIK-KMPEYDTLMKDFKTKTYPSNSLAKW-- 278
Query: 118 EIEDEEALPPVSEMTMQEYCLAYPECAYDPEK 149
E+ P S Q + L YDP K
Sbjct: 279 ---MEKHKKPDS----QGFDLLRKLLEYDPTK 303
>gnl|CDD|233000 TIGR00508, bioA, adenosylmethionine-8-amino-7-oxononanoate
transaminase. All members of the seed alignment have
been demonstrated experimentally to act as EC 2.6.1.62,
an enzyme in the biotin biosynthetic pathway. Alternate
names include 7,8-diaminopelargonic acid
aminotransferase, DAPA aminotransferase, and
adenosylmethionine-8-amino-7-oxononanoate
aminotransferase. The gene symbol is bioA in E. coli and
BIO3 in S. cerevisiae [Biosynthesis of cofactors,
prosthetic groups, and carriers, Biotin].
Length = 417
Score = 26.7 bits (60), Expect = 7.7
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 75 EALQIPFPQDTETAKINEEEKQTMAEIKKWIEESQVRIAG 114
E + IP P ++ E + +A ++ +EE IA
Sbjct: 159 EVVFIPAPPCYRCWDPDDCEAECLAALEALLEEHADEIAA 198
>gnl|CDD|227375 COG5042, NUP, Purine nucleoside permease [Nucleotide transport
and metabolism].
Length = 349
Score = 26.7 bits (59), Expect = 7.8
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 46 PEAPPKIDWALYKNKIPVPGL 66
EA P +D KI VPGL
Sbjct: 48 IEAQPWLDGLDLTEKIAVPGL 68
>gnl|CDD|223409 COG0332, FabH, 3-oxoacyl-[acyl-carrier-protein].
Length = 323
Score = 26.8 bits (60), Expect = 7.9
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 143 CAYDPEKPTFWPHDEENQITKEDEEWWEKRQ 173
+Y PE+ + + + +EW E R
Sbjct: 10 GSYLPERVV--TNADLEKRVDTSDEWIETRT 38
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 26.9 bits (60), Expect = 7.9
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 4/67 (5%)
Query: 68 DQFQKQYEALQIPFPQDTETAKINEEE----KQTMAEIKKWIEESQVRIAGYKKEIEDEE 123
D+ + + L E + E ++ + ++++ IEE I EIE+ E
Sbjct: 806 DELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELE 865
Query: 124 ALPPVSE 130
L E
Sbjct: 866 ELIEELE 872
>gnl|CDD|223595 COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme
metabolism].
Length = 169
Score = 26.1 bits (58), Expect = 8.0
Identities = 7/36 (19%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 87 TAKINEEEKQTMAEIKKWIEESQVRIAGYKKEIEDE 122
E E ++ + + +EE+ +A Y + D+
Sbjct: 18 RRSTGEYEDKSGPLLVELLEEAGHNVAAYTI-VPDD 52
>gnl|CDD|241496 cd13342, PH-GRAM_MTMR4, Myotubularian (MTM) related 4 protein
(MTMR4) Pleckstrin Homology-Glucosyltransferases,
Rab-like GTPase activators and Myotubularins (PH-GRAM)
domain. MTMR4 is a member of the myotubularin dual
specificity protein phosphatase gene family. MTMR4
binds to phosphoinositide lipids through its PH-GRAM
domain, and can hydrolyze
phosphatidylinositol(3)-phosphate and
phosphatidylinositol(3,5)-biphosphate in vitro. The
protein form heteromers with MTMR3. Both MTMR3 and
MTMR4 contain a N-terminal PH-GRAM domain, a
Rac-induced recruitment domain (RID) domain, an active
PTP domain, a SET-interaction domain, a coiled-coil
region, and a C-terminal lipid-binding FYVE domain
which binds phosphotidylinositol-3-phosphate.
Myotubularin-related proteins are a subfamily of
protein tyrosine phosphatases (PTPs) that
dephosphorylate D3-phosphorylated inositol lipids.
Mutations in this family cause the human neuromuscular
disorders myotubular myopathy and type 4B
Charcot-Marie-Tooth syndrome. 6 of the 13 MTMRs (MTMRs
5, 9-13) contain naturally occurring substitutions of
residues required for catalysis by PTP family enzymes.
Although these proteins are predicted to be
enzymatically inactive, they are thought to function as
antagonists of endogenous phosphatase activity or
interaction modules. Most MTMRs contain a N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, a PTP domain (which may be active or inactive),
a SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is
part of a larger motif with a pleckstrin homology (PH)
domain fold. The PH domain family possesses multiple
functions including the ability to bind
phosphoinositides via its beta1/beta2, beta3/beta4, and
beta6/beta7 connecting loops and to other proteins.
However, no phosphoinositide binding sites have been
found for the MTMRs to date.
Length = 147
Score = 26.1 bits (57), Expect = 8.7
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 47 EAPPKIDWALYKNKIPVPGLVDQFQKQYEALQIPFP 82
E PP +++ K+ P LV K+ E+LQ+PF
Sbjct: 3 EGPPSLEYIQAKDLFPPKELV----KEEESLQVPFT 34
>gnl|CDD|212979 cd12046, SH3_p67phox_C, C-terminal (or second) Src Homology 3
domain of the p67phox subunit of NADPH oxidase.
p67phox, also called Neutrophil cytosol factor 2
(NCF-2), is a cytosolic subunit of the phagocytic NADPH
oxidase complex (also called Nox2 or gp91phox) which
plays a crucial role in the cellular response to
bacterial infection. NADPH oxidase catalyzes the
transfer of electrons from NADPH to oxygen during
phagocytosis forming superoxide and reactive oxygen
species. p67phox plays a regulatory role and contains
N-terminal TPR, first SH3 (or N-terminal or central
SH3), PB1, and C-terminal SH3 domains. It binds, via its
C-terminal SH3 domain, to a proline-rich region of
p47phox and upon activation, this complex assembles with
flavocytochrome b558, the Nox2-p22phox heterodimer.
Concurrently, RacGTP translocates to the membrane and
interacts with the TPR domain of p67phox, which leads to
the activation of NADPH oxidase. The PB1 domain of
p67phox binds to its partner PB1 domain in p40phox, and
this facilitates the assembly of p47phox-p67phox at the
membrane. SH3 domains are protein interaction domains
that bind to proline-rich ligands with moderate affinity
and selectivity, preferentially to PxxP motifs. They
play versatile and diverse roles in the cell including
the regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 53
Score = 24.4 bits (53), Expect = 9.9
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 144 AYDPEKPTFWPHDEENQITKEDEEWWEKRQKNLVG 178
A PE F D ++K +E+W E + K +G
Sbjct: 10 ASQPEDLEFQKGDVILVLSKVNEDWLEGQCKGKIG 44
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
0.312 0.131 0.401
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,614,474
Number of extensions: 882940
Number of successful extensions: 951
Number of sequences better than 10.0: 1
Number of HSP's gapped: 942
Number of HSP's successfully gapped: 65
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.4 bits)