RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7971
(276 letters)
>gnl|CDD|115363 pfam06701, MIB_HERC2, Mib_herc2. Named "mib/herc2 domain" in.
Usually the protein also contains an E3 ligase domain
(either Ring or Hect).
Length = 63
Score = 93.2 bits (232), Expect = 1e-24
Identities = 35/68 (51%), Positives = 43/68 (63%), Gaps = 5/68 (7%)
Query: 157 GARVVRGVDWQWEDQDGGNGRRGKVNEVQDWSAASPRSAAYIVWDNGAKNLYRVGFEGMA 216
GARVVRGVDW+W DQDGG G G V E+ SP + WD G+ N YR+G EG
Sbjct: 1 GARVVRGVDWKWGDQDGGEGGEGTVTEI-----ESPDGWVVVQWDTGSTNSYRMGAEGKY 55
Query: 217 DLKVLNDA 224
DLK+ ++A
Sbjct: 56 DLKLADNA 63
Score = 91.7 bits (228), Expect = 4e-24
Identities = 35/63 (55%), Positives = 44/63 (69%), Gaps = 3/63 (4%)
Query: 18 GARVIRGPDWKWGKQDGGDGHVGTVRNFESPEE-VVVVWDNGTAANYRCA--GAFDLRIL 74
GARV+RG DWKWG QDGG+G GTV ESP+ VVV WD G+ +YR G +DL++
Sbjct: 1 GARVVRGVDWKWGDQDGGEGGEGTVTEIESPDGWVVVQWDTGSTNSYRMGAEGKYDLKLA 60
Query: 75 DSA 77
D+A
Sbjct: 61 DNA 63
>gnl|CDD|239079 cd02339, ZZ_Mind_bomb, Zinc finger, ZZ type. Zinc finger present in
Drosophila Mind bomb (D-mib) and related proteins. The
ZZ motif coordinates two zinc ions and most likely
participates in ligand binding or molecular scaffolding.
Mind bomb is an E3 ubiqitin ligase that has been shown
to regulate signaling by the Notch ligand Delta in
Drosophila melanogaster.
Length = 45
Score = 92.1 bits (229), Expect = 2e-24
Identities = 30/45 (66%), Positives = 36/45 (80%)
Query: 86 TMCDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRI 130
+CD C++Q I GIRWKCAEC NYDLC+ CYH +KH+L HRFYR
Sbjct: 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGDKHDLEHRFYRY 45
>gnl|CDD|239069 cd02249, ZZ, Zinc finger, ZZ type. Zinc finger present in
dystrophin, CBP/p300 and many other proteins. The ZZ
motif coordinates one or two zinc ions and most likely
participates in ligand binding or molecular scaffolding.
Many proteins containing ZZ motifs have other
zinc-binding motifs as well, and the majority serve as
scaffolds in pathways involving acetyltransferase,
protein kinase, or ubiqitin-related activity. ZZ
proteins can be grouped into the following functional
classes: chromatin modifying, cytoskeletal scaffolding,
ubiquitin binding or conjugating, and membrane receptor
or ion-channel modifying proteins.
Length = 46
Score = 61.7 bits (150), Expect = 5e-13
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHA--EKHNLRHRFYRI 130
CD C +PI G+R+ C C ++DLCS CY + H H F I
Sbjct: 3 CDGC-LKPIVGVRYHCLVCEDFDLCSSCYAKGKKGHPPDHSFTEI 46
>gnl|CDD|239084 cd02344, ZZ_HERC2, Zinc finger, ZZ type. Zinc finger present in
HERC2 and related proteins. HERC2 is a potential E3
ubiquitin protein ligase and/or guanine nucleotide
exchange factor. The ZZ motif coordinates two zinc ions
and most likely participates in ligand binding or
molecular scaffolding.
Length = 45
Score = 59.1 bits (143), Expect = 5e-12
Identities = 21/43 (48%), Positives = 26/43 (60%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRI 130
CD C+ PI G R+KC C ++D C C+ KHN RH F RI
Sbjct: 3 CDGCQMFPINGPRFKCRNCDDFDFCENCFKTRKHNTRHTFGRI 45
>gnl|CDD|239080 cd02340, ZZ_NBR1_like, Zinc finger, ZZ type. Zinc finger present in
Drosophila ref(2)P, NBR1, Human sequestosome 1 and
related proteins. The ZZ motif coordinates two zinc ions
and most likely participates in ligand binding or
molecular scaffolding. Drosophila ref(2)P appears to
control the multiplication of sigma rhabdovirus. NBR1
(Next to BRCA1 gene 1 protein) interacts with
fasciculation and elongation protein zeta-1 (FEZ1) and
calcium and integrin binding protein (CIB), and may
function in cell signalling pathways. Sequestosome 1 is
a phosphotyrosine independent ligand for the Lck SH2
domain and binds noncovalently to ubiquitin via its UBA
domain.
Length = 43
Score = 58.0 bits (141), Expect = 1e-11
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFYRI 130
CD C Q PI G+R+KC C +YDLC C H H +I
Sbjct: 3 CDGC-QGPIVGVRYKCLVCPDYDLCESCEAKGVHPE-HAMLKI 43
>gnl|CDD|239078 cd02338, ZZ_PCMF_like, Zinc finger, ZZ type. Zinc finger present in
potassium channel modulatory factor (PCMF) 1 and
related proteins. The ZZ motif coordinates two zinc ions
and most likely participates in ligand binding or
molecular scaffolding. Human potassium channel
modulatory factor 1 or FIGC has been shown to possess
intrinsic E3 ubiquitin ligase activity and to promote
ubiquitination.
Length = 49
Score = 54.7 bits (132), Expect = 2e-10
Identities = 17/41 (41%), Positives = 22/41 (53%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFY 128
CD C + G R+KC C +YDLC+ CY + RH F
Sbjct: 3 CDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFD 43
>gnl|CDD|239074 cd02334, ZZ_dystrophin, Zinc finger, ZZ type. Zinc finger present
in dystrophin and dystrobrevin. The ZZ motif coordinates
two zinc ions and most likely participates in ligand
binding or molecular scaffolding. Dystrophin attaches
actin filaments to an integral membrane glycoprotein
complex in muscle cells. The ZZ domain in dystrophin has
been shown to be essential for binding to the membrane
protein beta-dystroglycan.
Length = 49
Score = 54.7 bits (132), Expect = 2e-10
Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 86 TMCDFCKQQPIYGIRWKCAECSNYDLCSICY----HAEKHNLRH 125
C+ CK+ PI G R++C +C NYDLC C+ ++ H H
Sbjct: 1 AKCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSH 44
>gnl|CDD|144236 pfam00569, ZZ, Zinc finger, ZZ type. Zinc finger present in
dystrophin, CBP/p300. ZZ in dystrophin binds calmodulin.
Putative zinc finger; binding not yet shown. Four to six
cysteine residues in its sequence are responsible for
coordinating zinc ions, to reinforce the structure.
Length = 46
Score = 52.1 bits (125), Expect = 1e-09
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 82 KHDGTMCDFCKQQPIYGIRWKCAECSNYDLCSICY 116
H C+ CK+ PI G R+ C C +YDLC C+
Sbjct: 1 IHHVYTCNICKECPIIGFRYHCLRCFDYDLCQSCF 35
>gnl|CDD|197633 smart00291, ZnF_ZZ, Zinc-binding domain, present in Dystrophin,
CREB-binding protein. Putative zinc-binding domain
present in dystrophin-like proteins, and CREB-binding
protein/p300 homologues. The ZZ in dystrophin appears to
bind calmodulin. A missense mutation of one of the
conserved cysteines in dystrophin results in a patient
with Duchenne muscular dystrophy.
Length = 44
Score = 50.5 bits (121), Expect = 6e-09
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHR 126
CD C +PI G+R+ C C +YDLC C+ H
Sbjct: 7 CDTC-GKPIVGVRYHCLVCPDYDLCQSCFAKGSAGGEHS 44
>gnl|CDD|239081 cd02341, ZZ_ZZZ3, Zinc finger, ZZ type. Zinc finger present in ZZZ3
(ZZ finger containing 3) and related proteins. The ZZ
motif coordinates two zinc ions and most likely
participates in ligand binding or molecular scaffolding.
Length = 48
Score = 48.2 bits (115), Expect = 4e-08
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 88 CDFCKQQPIYGIRWKCAECSN--YDLCSICYHA-EKHNLRHRFYRI 130
CD C +PI G R+ C+EC + +DLC C E H H +I
Sbjct: 3 CDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGESHQEDHWLVKI 48
>gnl|CDD|239085 cd02345, ZZ_dah, Zinc finger, ZZ type. Zinc finger present in
Drosophila dah and related proteins. The ZZ motif
coordinates two zinc ions and most likely participates
in ligand binding or molecular scaffolding. Dah
(discontinuous actin hexagon) is a membrane associated
protein essential for cortical furrow formation in
Drosophila. .
Length = 49
Score = 46.0 bits (109), Expect = 3e-07
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHA----EKHNLRHRFYRI 130
C C++Q I GIR+ C C +Y LC CY ++HN H Y +
Sbjct: 3 CSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYEL 49
>gnl|CDD|239075 cd02335, ZZ_ADA2, Zinc finger, ZZ type. Zinc finger present in
ADA2, a putative transcriptional adaptor, and related
proteins. The ZZ motif coordinates two zinc ions and
most likely participates in ligand binding or molecular
scaffolding.
Length = 49
Score = 43.4 bits (103), Expect = 3e-06
Identities = 17/39 (43%), Positives = 23/39 (58%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHR 126
CD+C + IR KCAEC ++DLC C+ A +HR
Sbjct: 3 CDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHR 41
>gnl|CDD|239082 cd02342, ZZ_UBA_plant, Zinc finger, ZZ type. Zinc finger present in
plant ubiquitin-associated (UBA) proteins. The ZZ motif
coordinates a zinc ion and most likely participates in
ligand binding or molecular scaffolding.
Length = 43
Score = 39.5 bits (92), Expect = 5e-05
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYH 117
CD C PI G R+K +YDLC+IC+
Sbjct: 3 CDGCGVLPITGPRYKSKVKEDYDLCTICFS 32
>gnl|CDD|239077 cd02337, ZZ_CBP, Zinc finger, ZZ type. Zinc finger present in
CBP/p300 and related proteins. The ZZ motif coordinates
two zinc ions and most likely participates in ligand
binding or molecular scaffolding. CREB-binding protein
(CBP) is a large multidomain protein that provides
binding sites for transcriptional coactivators, the role
of the ZZ domain in CBP/p300 is unclear.
Length = 41
Score = 37.9 bits (88), Expect = 2e-04
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 86 TMCDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKH 121
C+ CK RW C C +YDLC CY+ + H
Sbjct: 1 YTCNECKHHV--ETRWHCTVCEDYDLCITCYNTKNH 34
>gnl|CDD|227445 COG5114, COG5114, Histone acetyltransferase complex SAGA/ADA,
subunit ADA2 [Chromatin structure and dynamics].
Length = 432
Score = 38.1 bits (88), Expect = 0.004
Identities = 13/41 (31%), Positives = 14/41 (34%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICYHAEKHNLRHRFY 128
CD C KC EC DLC C+ H Y
Sbjct: 8 CDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPY 48
>gnl|CDD|216929 pfam02207, zf-UBR, Putative zinc finger in N-recognin (UBR box).
This region is found in E3 ubiquitin ligases that
recognise N-recognins.
Length = 71
Score = 30.8 bits (70), Expect = 0.13
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 12/50 (24%)
Query: 90 FCKQQPIYGIRWKCAECSNYDLCSICY-------HAEKHNLRHRFYRINF 132
F QP+Y +C CS C ICY H H++ F +
Sbjct: 7 FKSGQPVY----RCLTCSLDPTCVICYECFSISCHKG-HDVVELFSKRGG 51
>gnl|CDD|239083 cd02343, ZZ_EF, Zinc finger, ZZ type. Zinc finger present in
proteins with an EF_hand motif. The ZZ motif coordinates
two zinc ions and most likely participates in ligand
binding or molecular scaffolding.
Length = 48
Score = 30.0 bits (67), Expect = 0.15
Identities = 10/29 (34%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 88 CDFCKQQPIYGIRWKCAECSNYDLCSICY 116
CD C + + R++C +C++ DLC C+
Sbjct: 3 CDGCDEIAPWH-RYRCLQCTDMDLCKTCF 30
>gnl|CDD|184051 PRK13431, PRK13431, F0F1 ATP synthase subunit delta; Provisional.
Length = 180
Score = 31.6 bits (71), Expect = 0.24
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 215 MADLKVLND--AKALRHHTLSQLRLLRDVPDVGKLLMGLGSQAADKKSSGMWQIKMEIPL 272
M DLKV++ AKAL++HT L LL ++ ++GL + A K + Q+ + L
Sbjct: 1 MQDLKVISKHYAKALKNHTKGDLALLEEI------VVGLKNVAEAIKLHKLNQVLAHVSL 54
Query: 273 YMK 275
+K
Sbjct: 55 KVK 57
>gnl|CDD|193580 cd09891, NGN_Bact_1, Bacterial N-Utilization Substance G (NusG)
N-terminal (NGN) domain, subgroup 1. The N-Utilization
Substance G (NusG) protein is involved in transcription
elongation and termination in bacteria. NusG is
essential in Escherichia coli and associates with RNA
polymerase elongation and Rho-termination. Homologs of
the NusG gene exist in all bacteria. The NusG N-terminal
domain (NGN) is similar in all NusG homologs, but its
C-terminal domain and the linker that separates these
two domains are different. The domain organization of
NusG suggests that the common properties of NusG and its
homologs are due to their similar NGN domains.
Length = 107
Score = 30.1 bits (69), Expect = 0.43
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 118 AEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRGIFPG 157
E L + P +E V+ E + KK+ R +FPG
Sbjct: 23 IESEGLEDYIGEVLVP-TEEVV-EVKNGKKKVKERKLFPG 60
>gnl|CDD|222553 pfam14116, YyzF, YyzF-like protein. The YyzF-like protein family
includes the B. subtilis YyzF protein, which is
functionally uncharacterized. This family of proteins
is found in bacteria. Proteins in this family are
approximately 60 amino acids in length.
Length = 48
Score = 28.4 bits (64), Expect = 0.44
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 81 VKHDGTMCDFCKQQPIY 97
V+ T CD+C + +Y
Sbjct: 29 VEKLPTKCDYCDEPAVY 45
>gnl|CDD|184135 PRK13551, PRK13551, agmatine deiminase; Provisional.
Length = 362
Score = 30.7 bits (70), Expect = 0.81
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 32 QDGGDGHVGTVRNFESPEEVVVVW-DNGTAANY-RCAGAFDL 71
D DGHV V F P EV + W D+ Y R A ++
Sbjct: 207 NDETDGHVDNVCCFVRPGEVALAWTDDENDPQYARSKAALEV 248
>gnl|CDD|218048 pfam04371, PAD_porph, Porphyromonas-type peptidyl-arginine
deiminase. Peptidyl-arginine deiminase (PAD) enzymes
catalyze the deimination of the guanidino group from
carboxy-terminal arginine residues of various peptides
to produce ammonia. PAD from Porphyromonas gingivalis
(PPAD) appears to be evolutionarily unrelated to
mammalian PAD (pfam03068), which is a metalloenzyme.
PPAD is thought to belong to the same superfamily as
aminotransferase and arginine deiminase, and to form an
alpha/beta propeller structure. This family has
previously been named PPADH (Porphyromonas
peptidyl-arginine deiminase homologues). The predicted
catalytic residues in PPAD are Asp130, Asp187, His236,
Asp238 and Cys351. These are absolutely conserved with
the exception of Asp187 which is absent in two family
members. PPAD is also able to catalyze the deimination
of free L-arginine, but has primarily peptidyl-arginine
specificity. It may have a FMN cofactor.
Length = 329
Score = 29.6 bits (67), Expect = 1.7
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 33 DGGDGHVGTVRNFESPEEVVVVW-DNGTAANY 63
D DGHV + F +P VV+ W D+ Y
Sbjct: 195 DDTDGHVDNLARFVAPGTVVLSWTDDPNDPQY 226
>gnl|CDD|223328 COG0250, NusG, Transcription antiterminator [Transcription].
Length = 178
Score = 29.2 bits (66), Expect = 1.7
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 117 HAEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRGIFPG 157
AE + + + P E V E + K K I R +FPG
Sbjct: 25 KAELLGMEDLIFEVLVPTEEVV--EVKGKRKVIVERKLFPG 63
>gnl|CDD|180161 PRK05609, nusG, transcription antitermination protein NusG;
Validated.
Length = 181
Score = 28.6 bits (65), Expect = 2.7
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 118 AEKHNLRHRFYRINFPGSERVLLEPRRKSKKISVRGIFPG 157
E + + P +E V+ E + KK R FPG
Sbjct: 29 IETLGMEDLIGEVLVP-TEEVV-EVKNGKKKKVERKFFPG 66
>gnl|CDD|225505 COG2957, COG2957, Peptidylarginine deiminase and related enzymes
[Amino acid transport and metabolism].
Length = 346
Score = 28.5 bits (64), Expect = 3.7
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 31 KQDGGDGHVGTVRNFESPEEVVVVW-DNGTAANY 63
K D DGH+ T+ F +P E+V+ W D+ +Y
Sbjct: 208 KNDDTDGHIDTLARFVAPGEIVLSWCDDENDPHY 241
>gnl|CDD|227154 COG4817, COG4817, DNA-binding ferritin-like protein (Dps family)
[General function prediction only].
Length = 111
Score = 27.0 bits (60), Expect = 5.7
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 5/50 (10%)
Query: 180 KVNEVQDWSAASPRSAA-----YIVWDNGAKNLYRVGFEGMADLKVLNDA 224
+ E ++W R+ Y + K L++ G G ++K+L +
Sbjct: 8 GLEEKREWKEFENRAKKLPKDYYTAYKEIQKYLWKSGPTGWNEMKILGNI 57
>gnl|CDD|132423 TIGR03380, agmatine_aguA, agmatine deiminase. Members of this
family are agmatine deiminase (3.5.3.12), as
characterized in Pseudomonas aeruginosa and plants.
Related deiminases include the peptidyl-arginine
deiminase (3.5.3.15) as found in Porphyromonas
gingivalis [Central intermediary metabolism, Polyamine
biosynthesis].
Length = 357
Score = 28.0 bits (63), Expect = 5.9
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 32 QDGGDGHVGTVRNFESPEEVVVVW-DNGTAANY-RCAGAFDL 71
D +GHV + F P EV + W D+ + Y A+D+
Sbjct: 204 NDETNGHVDNLCCFVRPGEVALSWTDDESDPQYEISKEAYDV 245
>gnl|CDD|238880 cd01842, SGNH_hydrolase_like_5, SGNH_hydrolase subfamily. SGNH
hydrolases are a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases.
Length = 183
Score = 27.5 bits (61), Expect = 6.2
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 9/79 (11%)
Query: 48 PEEVVVVWDNGTAANYRCAGAFDLRILDSAPTGVKHDGTMCDFCKQQPIYGIRWKCAECS 107
P E ++VW+ G F L L +++D +F Y A+C
Sbjct: 90 PIECLIVWNTAMPVAEEIKGGFLLPELHDLSKSLRYDVLEGNF------YSAT--LAKCY 141
Query: 108 NYDLCSICYHAEKHNLRHR 126
+D+ + YH +H ++HR
Sbjct: 142 GFDVLDLHYHF-RHAMQHR 159
>gnl|CDD|197333 cd09099, INPP5c_Synj2, Catalytic inositol polyphosphate
5-phosphatase (INPP5c) domain of synaptojanin 2. This
subfamily contains the INPP5c domains of human
synaptojanin 2 (Synj2) and related proteins. It belongs
to a family of Mg2+-dependent inositol polyphosphate
5-phosphatases, which hydrolyze the 5-phosphate from the
inositol ring of various 5-position phosphorylated
phosphoinositides (PIs) and inositol phosphates (IPs),
and to the large EEP
(exonuclease/endonuclease/phosphatase) superfamily that
contains functionally diverse enzymes that share a
common catalytic mechanism of cleaving phosphodiester
bonds. Synj2 can hydrolyze phosphatidylinositol
diphosphate (PIP2) to phosphatidylinositol phosphate
(PIP). In addition to this INPP5c domain, these proteins
contain an N-terminal Sac1-like domain; the Sac1 domain
can dephosphorylate a variety of phosphoinositides in
vitro. Synj2 occurs as multiple alternative splice
variants in various tissues. These variants share the
INPP5c domain and the Sac1 domain. Synj2A is recruited
to the mitochondria via its interaction with OMP25, a
mitochondrial outer membrane protein. Synj2B is found at
nerve terminals in the brain and at the spermatid
manchette in testis. Synj2B undergoes further
alternative splicing to give 2B1 and 2B2. In
clathrin-mediated endocytosis, Synj2 participates in the
formation of clathrin-coated pits, and perhaps also in
vesicle decoating. Rac1 GTPase regulates the
intracellular localization of Synj2 forms, but not
Synj1. Synj2 may contribute to the role of Rac1 in cell
migration and invasion, and is a potential target for
therapeutic intervention in malignant tumors.
Length = 336
Score = 27.3 bits (60), Expect = 9.3
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 6/61 (9%)
Query: 172 DGGNGRRGKV---NEVQDWSAASPRSAAYIVW---DNGAKNLYRVGFEGMADLKVLNDAK 225
+GG R + +E+ DW SP+ + + ++ +++ VGFE M +L N
Sbjct: 11 NGGKQFRSNILGTSELTDWLLDSPKLSGTPDFQDDESNPPDIFAVGFEEMVELSAGNIVN 70
Query: 226 A 226
A
Sbjct: 71 A 71
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 0.137 0.444
Gapped
Lambda K H
0.267 0.0667 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,176,673
Number of extensions: 1334483
Number of successful extensions: 970
Number of sequences better than 10.0: 1
Number of HSP's gapped: 967
Number of HSP's successfully gapped: 34
Length of query: 276
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 180
Effective length of database: 6,679,618
Effective search space: 1202331240
Effective search space used: 1202331240
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: 58 (26.2 bits)