RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6769
(164 letters)
>gnl|CDD|190534 pfam03131, bZIP_Maf, bZIP Maf transcription factor. Maf
transcription factors contain a conserved basic region
leucine zipper (bZIP) domain, which mediates their
dimerisation and DNA binding property. Thus, this family
is probably related to pfam00170.
Length = 93
Score = 133 bits (337), Expect = 2e-41
Identities = 53/93 (56%), Positives = 70/93 (75%), Gaps = 2/93 (2%)
Query: 54 ISDDDLVTISVRDLNRQLKMRGLSREDIIKMKQRRRTLKNRGYAASCRIKRIEQKDELET 113
SDD LV++SVR+LNR L RGLS+E++I++KQRRRTLKNRGYA SCR KR++Q+ ELE
Sbjct: 1 FSDDQLVSMSVRELNRHL--RGLSKEEVIRLKQRRRTLKNRGYAQSCRSKRVQQRHELEK 58
Query: 114 EKSQEYQDMELMEQDCNLMREELHAYSLKCEAL 146
EKSQ Q +E ++Q+ + + E A K EAL
Sbjct: 59 EKSQLQQQVEQLKQEVSRLARERDALKAKYEAL 91
>gnl|CDD|197664 smart00338, BRLZ, basic region leucin zipper.
Length = 65
Score = 39.1 bits (92), Expect = 5e-05
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 7/61 (11%)
Query: 85 KQRRRTLKNRGYAASCRIKRIEQKDELETEKSQ---EYQDM----ELMEQDCNLMREELH 137
K+RRR +NR A R ++ + +ELE + Q E + + E + ++ ++ EL
Sbjct: 5 KRRRRRERNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSELE 64
Query: 138 A 138
Sbjct: 65 E 65
>gnl|CDD|241457 cd13303, PH1_Rtt106, Histone chaperone RTT106, regulator of Ty1
transposition protein 106 Pleckstrin homology (PH)
domain. Rtt106 is a histone chaperone. The binding of
Rtt106 to H3K56-acetylated (H3-H4)2 tetramers
contributes to nucleosome assembly in terms of DNA
replication, gene silencing and maintenance of genomic
stability. Rtt106 contains an N-terminal
homodimerization domain and two C-terminal
pleckstrin-homology (PH) domains (PH1 and PH2). The
N-terminal domain homodimerizes homodimerizes and
interacts with H3-H4 independently of acetylation while
the double PH domain binds the K56-containing region of
H3. Rtt106 also interacts with both the SWI/SNF and RSC
chromatin remodeling complexes and is involved in their
cell-cycle dependent recruitment to histone gene pairs
regulated by the HIR co-repressor complex (HTA1-HTB1,
HHT1-HHF1, and HHT2-HHF2). This cd contains the first
PH domain repeat. PH domains have diverse functions,
but in general are involved in targeting proteins to
the appropriate cellular location or in the interaction
with a binding partner. They share little sequence
conservation, but all have a common fold, which is
electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 139
Score = 32.7 bits (75), Expect = 0.041
Identities = 16/67 (23%), Positives = 35/67 (52%), Gaps = 9/67 (13%)
Query: 7 PEPSYVFQLGLFILNFTLLIPCSKKNVELLVNFVLRVPPLSPSPVIDISDDDLVTISVRD 66
E + +F+L + ++L P KK +N VL + + P++ + D+++ +S+ +
Sbjct: 2 DESNVIFKLK----DVSVLSPLRKK-----LNLVLHLSSVDGKPMLSLLKDNVIELSITN 52
Query: 67 LNRQLKM 73
L +KM
Sbjct: 53 LKTNVKM 59
>gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination,
and repair].
Length = 1187
Score = 30.0 bits (68), Expect = 0.57
Identities = 25/102 (24%), Positives = 44/102 (43%), Gaps = 16/102 (15%)
Query: 21 NFTLLIPCSK---KNVELLVNFVLRVPPLSPSPVIDISDDDLVTISVRDLNRQLKMRGLS 77
+F +LI S+ K E L I + D D + + ++++R L++ G S
Sbjct: 181 DFDILITTSQFLSKRFEELSKLKFDF--------IFVDDVDAILKASKNVDRLLRLLGFS 232
Query: 78 REDI---IKMKQRRRTLKNRGYAASCRIKRIEQKDELETEKS 116
E I ++ + RR L A R++ ++ E E EK
Sbjct: 233 EEVIESAYELIKLRRKLYGEKRAE--RVREELREVEREREKK 272
>gnl|CDD|218517 pfam05236, TAF4, Transcription initiation factor TFIID component
TAF4 family. This region of similarity is found in
Transcription initiation factor TFIID component TAF4.
Length = 255
Score = 28.9 bits (65), Expect = 0.98
Identities = 11/62 (17%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 70 QLKMRGLSREDIIKMKQRRRTLKNRGYAASC-----RIKRIEQKDELETEKSQEYQDMEL 124
+ ++R + + I+ + RR +K+ +++ + QK + E E+ E +
Sbjct: 78 EERLRNILTKLIVLSRHRRDGIKSDPNYEIRSDVRRQLRFLAQKQKEEEERRVERRRELG 137
Query: 125 ME 126
+E
Sbjct: 138 LE 139
>gnl|CDD|236788 PRK10893, PRK10893, lipopolysaccharide exporter periplasmic
protein; Provisional.
Length = 192
Score = 28.5 bits (64), Expect = 1.4
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 53 DISDDDLVTISVRDLNRQ-LKMRG 75
D++ DDLVT+ N LKMRG
Sbjct: 143 DVTSDDLVTLYGTTFNSSGLKMRG 166
>gnl|CDD|216180 pfam00899, ThiF, ThiF family. This family contains a repeated
domain in ubiquitin activating enzyme E1 and members of
the bacterial ThiF/MoeB/HesA family.
Length = 134
Score = 27.9 bits (63), Expect = 1.6
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 52 IDISDDDLVTISVRDLNRQLKMRGLSREDIIKMK 85
+ + D D V +S +LNRQ+ L E I
Sbjct: 28 LTLVDFDTVELS--NLNRQI----LFTESDIGKP 55
>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 438
Score = 28.6 bits (64), Expect = 1.7
Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 2/83 (2%)
Query: 69 RQLKMRGLSREDIIKMKQRRRTLKNRGYAASCRIKRIEQKDELETEKSQEYQDMELMEQD 128
+ ++ L +E K+ ++ L+N A KR K+E + E + E +E +
Sbjct: 112 KDKELELLEKELDELSKELQKQLQN--TAEIIEKKRENNKNEERLKFENEKKLEESLELE 169
Query: 129 CNLMREELHAYSLKCEALIKFAA 151
E+LH +L E
Sbjct: 170 REKFEEQLHEANLDLEFKENEEQ 192
>gnl|CDD|193546 cd05670, M20_Acy1_YkuR_like, M20 Peptidase Aminoacyclase-1
YkuR-like proteins, including YkuR and Ama/HipO/HyuC
proteins. Peptidase M20 family, Aminoacyclase-1
YkuR-like subfamily including YkuR and Ama/HipO/HyuC
proteins, 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 = 367
Score = 28.4 bits (64), Expect = 1.7
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 6/61 (9%)
Query: 73 MRGLSREDIIKMKQRRRTLKNRGYAAS--CRIK-RIEQKDELETEKSQEY--QDMELMEQ 127
+R L++E + ++QR R + G S C +K + Q Q + M++
Sbjct: 245 IRTLTQETMELIQQRIRDIA-EGIEISFNCEVKVDLGQGGYYPVVNDPRLTEQFINFMKE 303
Query: 128 D 128
Sbjct: 304 A 304
>gnl|CDD|239224 cd02894, GGTase-II, Geranylgeranyltransferase type II
(GGTase-II)_like proteins containing the protein
prenyltransferase (PTase) domain, beta subunit (alpha 6
- alpha 6 barrel fold). GGTase-IIs are a subgroup of the
protein prenyltransferase family of lipid-modifying
enzymes. PTases catalyze the carboxyl-terminal
lipidation of Ras, Rab, and several other cellular
signal transduction proteins, facilitating membrane
associations and specific protein-protein interactions.
Prenyltransferases employ a Zn2+ ion to alkylate a thiol
group catalyzing the formation of thioether linkages
between cysteine residues at or near the C-terminus of
protein acceptors and the C1 atom of isoprenoid lipids
(geranylgeranyl (20-carbon) in the case of GGTase-II ).
GGTase-II catalyzes alkylation of both cysteine residues
in Rab proteins containing carboxy-terminal "CC", "CXCX"
or "CXC" motifs. PTases are heterodimeric with both
alpha and beta subunits required for catalytic activity.
In contrast to other prenyltransferases, GGTas-II
requires an escort protein to bring the substrate
protein to the catalytic heterodimer and to escort the
geryanylgeranylated product to the membrane.
Length = 287
Score = 28.0 bits (63), Expect = 2.3
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 4/40 (10%)
Query: 122 MELMEQDCNLMREELHAYSLKCEALI----KFAAKHKIHI 157
++L+ Q L REE+ + C+ + H HI
Sbjct: 40 LDLLGQLERLNREEIIEFVKSCQDNEDGGFGGSPGHDPHI 79
>gnl|CDD|224980 COG2069, CdhD, CO dehydrogenase/acetyl-CoA synthase delta subunit
(corrinoid Fe-S protein) [Energy production and
conversion].
Length = 403
Score = 27.9 bits (62), Expect = 2.6
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 65 RDLNRQLKMRGLSREDII 82
+ LNR+L RGL R+ I+
Sbjct: 266 KTLNRKLLKRGLPRDRIV 283
>gnl|CDD|238766 cd01489, Uba2_SUMO, Ubiquitin activating enzyme (E1) subunit
UBA2. UBA2 is part of the heterodimeric activating
enzyme (E1), specific for the SUMO family of
ubiquitin-like proteins (Ubls). E1 enzymes are part of
a conjugation cascade to attach Ub or Ubls, covalently
to substrate proteins consisting of activating (E1),
conjugating (E2), and/or ligating (E3) enzymes. E1
activates ubiquitin by C-terminal adenylation, and
subsequently forms a highly reactive thioester bond
between its catalytic cysteine and Ubls C-terminus. The
E1 also associates with E2 and promotes ubiquitin
transfer to the E2's catalytic cysteine.
Post-translational modification by SUMO family of
ubiquitin-like proteins (Ublps) is involved in cell
division, nuclear transport, the stress response and
signal transduction. UBA2 contains both the
nucleotide-binding motif involved in adenylation and
the catalytic cysteine involved in the thioester
intermediate and Ublp transfer to E2.
Length = 312
Score = 27.3 bits (61), Expect = 3.9
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 10/52 (19%)
Query: 34 ELLVNFVLRVPPLSPSPVIDISDDDLVTISVRDLNRQLKMRGLSREDIIKMK 85
ELL N VL + +I DL TI + +LNRQ R ++ + K K
Sbjct: 13 ELLKNLVL-------TGFGEIHIIDLDTIDLSNLNRQFLFR---KKHVGKSK 54
>gnl|CDD|173965 cd08045, TAF4, TATA Binding Protein (TBP) Associated Factor 4
(TAF4) is one of several TAFs that bind TBP and is
involved in forming Transcription Factor IID (TFIID)
complex. The TATA Binding Protein (TBP) Associated
Factor 4 (TAF4) is one of several TAFs that bind TBP and
are involved in forming the Transcription Factor IID
(TFIID) complex. TFIID is one of seven General
Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE,
TFIIF, and TFIID) that are involved in accurate
initiation of transcription by RNA polymerase II in
eukaryote. TFIID plays an important role in the
recognition of promoter DNA and assembly of the
pre-initiation complex. TFIID complex is composed of the
TBP and at least 13 TAFs. TAFs from various species were
originally named by their predicted molecular weight or
their electrophoretic mobility in polyacrylamide gels. A
new, unified nomenclature for the pol II TAFs has been
suggested to show the relationship between TAF orthologs
and paralogs. Several hypotheses are proposed for TAFs
functions such as serving as activator-binding sites,
core-promoter recognition or a role in essential
catalytic activity. Each TAF, with the help of a
specific activator, is required only for the expression
of subset of genes and is not universally involved for
transcription as are GTFs. In yeast and human cells,
TAFs have been found as components of other complexes
besides TFIID. Several TAFs interact via histone-fold
(HFD) motifs; HFD is the interaction motif involved in
heterodimerization of the core histones and their
assembly into nucleosome octamers. The minimal HFD
contains three alpha-helices linked by two loops and is
found in core histones, TAFS and many other
transcription factors. TFIID has a histone octamer-like
substructure. TAF4 domain interacts with TAF12 and makes
a novel histone-like heterodimer that binds DNA and has
a core promoter function of a subset of genes.
Length = 212
Score = 26.9 bits (60), Expect = 4.5
Identities = 19/101 (18%), Positives = 39/101 (38%), Gaps = 10/101 (9%)
Query: 32 NVELLVNFVLRVPPLSPSPVIDISDDDLVTISVRDLNRQLKMRGLSREDIIKMKQRRRTL 91
N L + ++ + ++ +D L IS L + ++R L + I + R +
Sbjct: 46 NPSPLAKKIRKI--AKKHGLKEVDEDVLDLIS---LALEERLRNLLEKLIEVSEHRVDSE 100
Query: 92 KNRGYAASC-----RIKRIEQKDELETEKSQEYQDMELMEQ 127
K +++ +EQ + E EK E + L+
Sbjct: 101 KEDERYEITSDVRKQLRFLEQLEREEEEKRDEEERERLLRA 141
>gnl|CDD|235390 PRK05289, PRK05289, UDP-N-acetylglucosamine acyltransferase;
Provisional.
Length = 262
Score = 27.0 bits (61), Expect = 5.2
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 71 LKMRGLSREDIIKMKQRRRTLKNRGYAASCRIKRIEQK 108
LK RG SRE+I +++ + L G ++ + ++
Sbjct: 199 LKRRGFSREEIHALRRAYKLLYRSGLTLEEALEELAEE 236
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 27.1 bits (60), Expect = 5.3
Identities = 19/76 (25%), Positives = 41/76 (53%), Gaps = 3/76 (3%)
Query: 48 PSPVIDISDDDLVTISVRDLNRQLKMRGLSREDIIKMKQRRRTLKNRGYAASCRIKRIEQ 107
P ID+ D+ +I ++ ++ ++ L R II++K ++ L AS KR++
Sbjct: 387 PDKAIDLIDEAASSIRMQIDSKPEELDRLDRR-IIQLKLEQQALMKESDEAS--KKRLDM 443
Query: 108 KDELETEKSQEYQDME 123
+E ++K ++Y ++E
Sbjct: 444 LNEELSDKERQYSELE 459
>gnl|CDD|238596 cd01191, INT_phiCTX_C, phiCTX phage and phage-related integrases,
site-specific recombinases, DNA breaking-rejoining
enzymes, C-terminal catalytic domain. This CD includes
various phage and bacterial integrases, including those
similar to phage integrases: Bordetella and Pseudomonas
phiCTX; E. coli Rac, Qin, and Shiga toxin 2 933W; and
Salmonella typhimurium LT2 Gifsy-2 and Fels-1; and a
putative pore-forming cytotoxin integrase from Vibrio
parahaemolyticus O3:K6.
Length = 196
Score = 26.6 bits (59), Expect = 5.8
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 54 ISDDDLVTISVRDLNRQLKMRGLSREDIIKMKQR--RRTLKNRG 95
D DL ++ L Q K+ LSR I + +R RT K +G
Sbjct: 74 TRDVDLNPPALAALKEQAKLTRLSRPHQITVLEREYGRTEKQKG 117
>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication,
recombination, and repair].
Length = 590
Score = 26.9 bits (60), Expect = 6.0
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 101 RIKRIEQKDELETEKSQEYQDMELMEQDCNLMR 133
+ IEQ E +K E + M C
Sbjct: 342 QRYLIEQSKPDEEQKQIELAKLRQMIAYCETQT 374
>gnl|CDD|184316 PRK13771, PRK13771, putative alcohol dehydrogenase; Provisional.
Length = 334
Score = 26.9 bits (60), Expect = 6.0
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 16/73 (21%)
Query: 6 NPEPSYVFQLGLFILNFTLLIP---CSKKNVELLVNFVL--RVPPLSPSPVIDISDDDLV 60
+P P+Y +LG IL +I +K++VE + V ++ PVI
Sbjct: 258 DPSPTYSLRLGYIILKDIEIIGHISATKRDVEEALKLVAEGKI-----KPVIG------A 306
Query: 61 TISVRDLNRQLKM 73
+S+ ++++ L+
Sbjct: 307 EVSLSEIDKALEE 319
>gnl|CDD|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 103
Score = 25.8 bits (57), Expect = 6.2
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 115 KSQEYQDMELMEQDCNLMREELHAYSLKCEALIKFAAK 152
K+ EY+ +E +E D NLM E Y++ + K A K
Sbjct: 57 KNGEYETLEELEADLNLMFENAKRYNVPNSRIYKDAEK 94
>gnl|CDD|130475 TIGR01408, Ube1, ubiquitin-activating enzyme E1. This model
represents the full length, over a thousand amino acids,
of a multicopy family of eukaryotic proteins, many of
which are designated ubiquitin-activating enzyme E1.
Members have two copies of the ThiF family domain
(pfam00899), a repeat found in ubiquitin-activating
proteins (pfam02134), and other regions.
Length = 1008
Score = 26.8 bits (59), Expect = 6.3
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 23 TLLIPCSKKNVELLVNFVLRVPPLSPSPVIDISDDDLVTISVRDLNRQLKMR 74
L+ C E+L NF L +I ++D DL+ S +LNRQ R
Sbjct: 422 IFLVGCGAIGCEMLKNFALMGVGTGKKGMITVTDPDLIEKS--NLNRQFLFR 471
>gnl|CDD|227318 COG4985, COG4985, ABC-type phosphate transport system, auxiliary
component [Inorganic ion transport and metabolism].
Length = 289
Score = 26.4 bits (58), Expect = 7.0
Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 16/85 (18%)
Query: 57 DDLVTISVRDLNRQLKMRGLSREDIIKMKQRRRTLKNRGYAASCRIKRIEQKDELETEKS 116
D +V VR +N QL+ +++++RR L + + EKS
Sbjct: 181 DKMVEQQVRVINSQLER--------LRLEKRRLQLNGQLDDEF--------QQHYVAEKS 224
Query: 117 QEYQDMELMEQDCNLMREELHAYSL 141
+ + + ++ + + +R EL L
Sbjct: 225 ELQKRLAQLQTELDALRAELERQFL 249
>gnl|CDD|182559 PRK10573, PRK10573, type IV pilin biogenesis protein; Provisional.
Length = 399
Score = 26.4 bits (59), Expect = 7.6
Identities = 14/62 (22%), Positives = 21/62 (33%), Gaps = 6/62 (9%)
Query: 105 IEQKDELETEKSQEYQDMELMEQDCNLMREELHAYSLKCEALIKFA---AKHKIHIPIEL 161
I K EL+ + L + L ++ L SLK I + +L
Sbjct: 12 INGKGELQDGMLWATSRLLLYQA---LQQQGLQPLSLKRGRRINARYWRGEQSAEFIRQL 68
Query: 162 AT 163
AT
Sbjct: 69 AT 70
>gnl|CDD|212009 cd11619, HR1_CIP4-like, Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of Cdc42-Interacting
Protein 4 and similar proteins. This subfamily is
composed of Cdc42-Interacting Protein 4 (CIP4), Formin
Binding Protein 17 (FBP17), FormiN Binding Protein
1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L
are Cdc42 effectors that bind Wiskott-Aldrich syndrome
protein (WASP) and function in endocytosis. CIP4 and
FBP17 bind to the Fas ligand and may be implicated in
the inflammatory response. CIP4 may also play a role in
phagocytosis. It functions downstream of Cdc42 in
PDGF-dependent actin reorganization and cell migration,
and also regulates the activity of PDGFRbeta. It uses
Src as a substrate in regulating the invasiveness of
breast tumor cells. CIP4 may also play a role in the
pathogenesis of Huntington's disease. Members of this
subfamily typically contain an N-terminal F-BAR
(FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain,
central HR1 domain, and a C-terminal SH3 domain. HR1
domains are anti-parallel coiled-coil (ACC) domains that
bind small GTPases from the Rho family; the HR1 domain
of CIP4 binds Cdc42 and TC10. Translocation of CIP4 is
facilitated by its binding to TC10 at the plasma
membrane.
Length = 77
Score = 24.9 bits (55), Expect = 8.8
Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 101 RIKRIEQK-DELETEKSQEYQDMELM 125
R K+++QK DELE E +E + + +
Sbjct: 4 RRKKLQQKIDELEKEIEKETKSRDGL 29
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 0.137 0.389
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,353,844
Number of extensions: 781666
Number of successful extensions: 962
Number of sequences better than 10.0: 1
Number of HSP's gapped: 959
Number of HSP's successfully gapped: 56
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
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: 55 (24.8 bits)