RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17025
(2010 letters)
>gnl|CDD|212576 cd11703, DHR2_DOCK7, Dock Homology Region 2, a GEF domain, of Class C
Dedicator of Cytokinesis 7. Dock7, also called
Zizimin-related 2 (Zir2), is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates the small GTPases Rac1 and Cdc42 by exchanging
bound GDP for free GTP. It plays a critical role in the
initial specification of axon formation in hippocampal
neurons. It affects neuronal polarity by regulating
microtubule dynamics. Dock7 also plays a role in
controlling myelination by Schwann cells. It may also
play important roles in the function and distribution of
dermal and follicular melanocytes. DOCK proteins are
divided into four classes (A-D) based on sequence
similarity and domain architecture; class C includes
Dock6, 7 and 8. All DOCKs contain two homology domains:
the DHR-1 (Dock homology region-1), also called CZH1
(CED-5, Dock180, and MBC-zizimin homology 1), and DHR-2
(also called CZH2 or Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock7, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Length = 473
Score = 665 bits (1717), Expect = 0.0
Identities = 318/468 (67%), Positives = 382/468 (81%), Gaps = 1/468 (0%)
Query: 1530 DLVFNLHMILSDTVKMKEFQEDPEMLLDLMYRIAKGYQNSPNLRLTWLANMAQKHMERNN 1589
DLVFNLHMILSDTVKMKE QEDPEML+DLMYRIAKGYQ SP+LRLTWL NMA KH ER+N
Sbjct: 1 DLVFNLHMILSDTVKMKEHQEDPEMLIDLMYRIAKGYQTSPDLRLTWLQNMAGKHSERSN 60
Query: 1590 HTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFISPNCLEECAVSDDVLSPEQEGV 1649
H EA CLVHSAALVAEYL M+E++ YLP+G V+ + IS N LEE AVSDDV+SP++EG+
Sbjct: 61 HAEAAQCLVHSAALVAEYLSMLEDRKYLPVGCVTFQNISSNVLEESAVSDDVVSPDEEGI 120
Query: 1650 CLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIFPIVEKSRDYKKLSNIHSKLHD 1709
C GK FTE+G V LLE AA+SF AGMYE VN VYKV+ PI E +RD KKL+ IH KL +
Sbjct: 121 CSGKYFTEAGLVGLLEQAAASFSMAGMYEAVNEVYKVLIPIHEANRDAKKLATIHGKLQE 180
Query: 1710 AYVKLYQIQGKRVFGTYFRVGFYGMKFGDLNNEEFIYKEPTLTKLPEIFSRLENFYAERF 1769
A+ K+ GKR+FGTYFRVGFYG KFGDL+ +EF+YKEP +TKL EI RLE FY ERF
Sbjct: 181 AFSKIVHQDGKRMFGTYFRVGFYGTKFGDLDEQEFVYKEPAITKLAEISHRLEGFYGERF 240
Query: 1770 GVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRETHFEQNFNIKTFMYAT 1829
G + + +IKDSNPVD LDP+ A+IQITYVEPYF+ YE + R T+F++N+N++ FMY T
Sbjct: 241 GEDVVEVIKDSNPVDKCKLDPNKAFIQITYVEPYFDTYEMKDRITYFDKNYNLRRFMYCT 300
Query: 1830 PFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQ 1889
PFT G+AHGELHEQ+KRKTILTT+ FPY+KTRI V+ +++IILTPIEVAIED+QKKTQ
Sbjct: 301 PFTLDGRAHGELHEQFKRKTILTTSHAFPYIKTRINVIHKEEIILTPIEVAIEDMQKKTQ 360
Query: 1890 ELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVVFLSDLLDGEKSPTKLQNKLRLC 1949
EL+ + Q+P DPK+LQMVLQG +GTTVNQGP+E+A VFLS++ K + NKLRLC
Sbjct: 361 ELAFATHQDPADPKMLQMVLQGSVGTTVNQGPLEVAQVFLSEIPSDPKL-FRHHNKLRLC 419
Query: 1950 FKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFTDKLMPLITFK 1997
FKDF+K+C DALRKNK+LIGPDQK+YQ+ELERNYHR + L PLI K
Sbjct: 420 FKDFTKRCEDALRKNKSLIGPDQKEYQRELERNYHRLKEALQPLINRK 467
>gnl|CDD|212568 cd11695, DHR2_DOCK_C, Dock Homology Region 2, a GEF domain, of Class
C Dedicator of Cytokinesis proteins. DOCK proteins are
atypical guanine nucleotide exchange factors (GEFs) that
lack the conventional Dbl homology (DH) domain. As GEFs,
they activate small GTPases by exchanging bound GDP for
free GTP. They are divided into four classes (A-D) based
on sequence similarity and domain architecture; class C,
also called the Zizimin-related (Zir) subfamily, includes
Dock6, 7 and 8. Class C DOCKs have been shown to have GEF
activity for both Rac and Cdc42. Dock6 regulates neurite
outgrowth. Dock7 plays a critical roles in the early
stages of axon formation, neuronal polarity, and
myelination. Dock8 regulates T and B cell numbers and
functions, and plays essential roles in humoral immune
responses and the proper formation of B cell
immunological synapses. All DOCKs contain two homology
domains: the DHR-1 (Dock homology region-1), also called
CZH1 (CED-5, Dock180, and MBC-zizimin homology 1), and
DHR-2 (also called CZH2 or Docker). The DHR-1 domain
binds phosphatidylinositol-3,4,5-triphosphate. This
alignment model represents the DHR-2 domain of Class C
Docks, which contains the catalytic GEF activity for Rac
and Cdc42.
Length = 368
Score = 639 bits (1650), Expect = 0.0
Identities = 258/423 (60%), Positives = 300/423 (70%), Gaps = 56/423 (13%)
Query: 1569 SPNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFIS 1628
SP+LRLTWL NMA+KH ER N EA CLVH+AA LG V L
Sbjct: 1 SPDLRLTWLQNMAEKHYERKNFAEAAQCLVHAAA----------------LGLVGL---- 40
Query: 1629 PNCLEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIF 1688
LE+ A SF AGMYE VN VYK++
Sbjct: 41 ---LEQAA--------------------------------ESFSKAGMYEAVNEVYKLLI 65
Query: 1689 PIVEKSRDYKKLSNIHSKLHDAYVKLYQIQ-GKRVFGTYFRVGFYGMKFGDLNNEEFIYK 1747
PI+E +RDYKKL+ IH KL DA+ K+ + Q GKR+FGTYFRVGFYG KFGDL+ +EFIYK
Sbjct: 66 PILEANRDYKKLAEIHGKLQDAFTKIEKQQGGKRMFGTYFRVGFYGSKFGDLDGKEFIYK 125
Query: 1748 EPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENY 1807
EP +TKLPEI RLE FY ERFG + +IKDSNPVDT LDPD AYIQITYVEPYF+ Y
Sbjct: 126 EPAITKLPEISHRLETFYGERFGEERVEVIKDSNPVDTSKLDPDKAYIQITYVEPYFDEY 185
Query: 1808 EKRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVV 1867
E + R T+FE+N+N++ FMYATPFT GKAHGEL EQYKRKTILTT FPYVKTR+QVV
Sbjct: 186 ELKERTTYFERNYNLRRFMYATPFTPDGKAHGELAEQYKRKTILTTENSFPYVKTRLQVV 245
Query: 1868 DRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVV 1927
+R++I+LTPIEVAIED+QKKT+EL+ + QEPPDPK+LQMVLQG IGTTVNQGP+E+A V
Sbjct: 246 NREEIVLTPIEVAIEDVQKKTRELAAATTQEPPDPKMLQMVLQGSIGTTVNQGPLEVANV 305
Query: 1928 FLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFT 1987
FLSD+ K + QNKLRLCFK+FSKKC DAL KNK LIGPDQK+YQKELERNY F
Sbjct: 306 FLSDIPLDPKELDRHQNKLRLCFKEFSKKCYDALEKNKELIGPDQKEYQKELERNYENFK 365
Query: 1988 DKL 1990
+KL
Sbjct: 366 EKL 368
>gnl|CDD|212575 cd11702, DHR2_DOCK6, Dock Homology Region 2, a GEF domain, of Class C
Dedicator of Cytokinesis 6. Dock6, also called
Zizimin-related 1 (Zir1), is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates the small GTPases Rac and Cdc42 by exchanging
bound GDP for free GTP. It is widely expressed and shows
highest expression in the dorsal root ganglion and the
brain. It regulates neurite outgrowth. DOCK proteins are
divided into four classes (A-D) based on sequence
similarity and domain architecture; class C includes
Dock6, 7 and 8. All DOCKs contain two homology domains:
the DHR-1 (Dock homology region-1), also called CZH1
(CED-5, Dock180, and MBC-zizimin homology 1), and DHR-2
(also called CZH2 or Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock6, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Length = 423
Score = 614 bits (1584), Expect = 0.0
Identities = 272/424 (64%), Positives = 337/424 (79%), Gaps = 3/424 (0%)
Query: 1569 SPNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFIS 1628
SP+LRLTWL NMA KH ER NH EA CLVHSAALVAEYL M+E+ +LP+G VS + IS
Sbjct: 1 SPDLRLTWLQNMAGKHSERGNHAEAAHCLVHSAALVAEYLSMLEDCRHLPVGCVSFQNIS 60
Query: 1629 PNCLEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIF 1688
N LEE AVSDD+LSP++EG+C GK FTE G V LLE AA+SF G+YE VN VYK++
Sbjct: 61 SNVLEESAVSDDILSPDEEGICSGKYFTELGLVGLLEQAAASFNMGGLYEAVNEVYKILI 120
Query: 1689 PIVEKSRDYKKLSNIHSKLHDAYVKLY-QIQG-KRVFGTYFRVGFYGMKFGDLNNEEFIY 1746
PI E +RDYKKL+ +H KL +A+ K+ Q G +R+FGTYFRVGFYG KFGDL+ +EF+Y
Sbjct: 121 PIHEANRDYKKLAVVHGKLQEAFNKITNQSSGWERMFGTYFRVGFYGCKFGDLDEQEFVY 180
Query: 1747 KEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFEN 1806
KEP++TKL EI RLE FY ERFG + IIKDSNPVD LDP+ AYIQITYVEP+F+
Sbjct: 181 KEPSITKLAEISHRLEEFYTERFGDEVVEIIKDSNPVDKSKLDPNKAYIQITYVEPFFDT 240
Query: 1807 YEKRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQV 1866
YE + R T+F++N+N++TF++ TPFT G+AHGELHEQYKRKTILTT+ FPY+KTRI V
Sbjct: 241 YELKDRVTYFDKNYNLRTFLFCTPFTLDGRAHGELHEQYKRKTILTTSHAFPYIKTRINV 300
Query: 1867 VDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAV 1926
+ R++I+L P+EVAIED+QKKTQEL+ + Q+P D K+LQMVLQGC+GTTVNQGP+E+A
Sbjct: 301 LHREEIVLIPVEVAIEDMQKKTQELAFATHQDPADAKMLQMVLQGCVGTTVNQGPLEVAQ 360
Query: 1927 VFLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRF 1986
VFLS++ + K + NKLRLCFKDF+K+C DALRKNK LIGPDQK+Y +ELERNY R
Sbjct: 361 VFLSEIPEDPKL-FRHHNKLRLCFKDFTKRCEDALRKNKALIGPDQKEYHRELERNYQRL 419
Query: 1987 TDKL 1990
+ L
Sbjct: 420 REAL 423
>gnl|CDD|212574 cd11701, DHR2_DOCK8, Dock Homology Region 2, a GEF domain, of Class C
Dedicator of Cytokinesis 8. Dock8, also called
Zizimin-related 3 (Zir3), is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates the small GTPases Rac1 and Cdc42 by exchanging
bound GDP for free GTP. Dock8 is highly expressed in the
immune system and it regulates T and B cell numbers and
functions. It plays essential roles in humoral immune
responses and the proper formation of B cell
immunological synapses. Dock8 deficiency is a primary
immune deficiency that results in extreme susceptibility
to cutaneous viral infections, elevated IgE levels, and
eosinophilia. It was originally described as an autosomal
recessive form of hyper IgE syndrome (AR-HIES). DOCK
proteins are divided into four classes (A-D) based on
sequence similarity and domain architecture; class C
includes Dock6, 7 and 8. All DOCKs contain two homology
domains: the DHR-1 (Dock homology region-1), also called
CZH1 (CED-5, Dock180, and MBC-zizimin homology 1), and
DHR-2 (also called CZH2 or Docker). The DHR-1 domain
binds phosphatidylinositol-3,4,5-triphosphate. This
alignment model represents the DHR-2 domain of Dock8,
which contains the catalytic GEF activity for Rac and/or
Cdc42.
Length = 422
Score = 569 bits (1468), Expect = 0.0
Identities = 252/422 (59%), Positives = 325/422 (77%), Gaps = 1/422 (0%)
Query: 1569 SPNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFIS 1628
SP+LRLTWL NMA+KH +R TEA MCLVH+AALVAEYL M+E+ YLP+G+VS + IS
Sbjct: 2 SPDLRLTWLQNMAEKHTKRKCFTEAAMCLVHAAALVAEYLSMLEDHSYLPVGSVSFQNIS 61
Query: 1629 PNCLEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIF 1688
N LEE AVSDD+LSP+++GVC G+ FTE+G V LLE AA F T G+YETVN VYK++
Sbjct: 62 SNVLEESAVSDDILSPDEDGVCSGRYFTENGLVGLLEQAAELFSTGGLYETVNEVYKIVI 121
Query: 1689 PIVEKSRDYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGDLNNEEFIYKE 1748
PI+E RD++KL++ H KL A+ + KR+FGTYFRVGFYG KFGDL+ +EFIYKE
Sbjct: 122 PILEAHRDFRKLASTHDKLQKAFDNIINKGHKRMFGTYFRVGFYGSKFGDLDEQEFIYKE 181
Query: 1749 PTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYE 1808
P +TKLPEI RLE FY + FG + + +IKDS PVD LDP+ AYIQIT+VEPYF++YE
Sbjct: 182 PAITKLPEISHRLEGFYGQCFGDDVVEVIKDSTPVDKSKLDPNKAYIQITFVEPYFDDYE 241
Query: 1809 KRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVVD 1868
+ R T+FE+NFN++ FMY TPFT G+ GEL EQYKRKTILTT FPY+KTRI V+
Sbjct: 242 MKDRVTYFEKNFNLRRFMYTTPFTLDGRPRGELSEQYKRKTILTTMHAFPYIKTRINVIQ 301
Query: 1869 RKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVVF 1928
+++ LTPIEVAIED+QKKT+EL+ + QEPPD K+LQMVLQG +G TVNQGP+E+A VF
Sbjct: 302 KEEFDLTPIEVAIEDMQKKTRELAEATHQEPPDAKMLQMVLQGSVGATVNQGPLEVAQVF 361
Query: 1929 LSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFTD 1988
L++ + + + NKLRLCFK+F +C +A+ KNK LI DQ++YQ+EL++NY++ +
Sbjct: 362 LAE-IPADPKLYRHHNKLRLCFKEFIMRCGEAVEKNKRLITADQREYQQELKKNYNKLRE 420
Query: 1989 KL 1990
L
Sbjct: 421 NL 422
>gnl|CDD|212567 cd11694, DHR2_DOCK_D, Dock Homology Region 2, a GEF domain, of Class
D Dedicator of Cytokinesis proteins. DOCK proteins are
atypical guanine nucleotide exchange factors (GEFs) that
lack the conventional Dbl homology (DH) domain. As GEFs,
they activate small GTPases by exchanging bound GDP for
free GTP. They are divided into four classes (A-D) based
on sequence similarity and domain architecture; class D,
also called the Zizimin subfamily, includes Dock9, 10 and
11. Class D Docks are specific GEFs for Cdc42. Dock9
plays important roles in spine formation and dendritic
growth. Dock10 and Dock11 are preferentially expressed in
lymphocytes. All DOCKs contain two homology domains: the
DHR-1 (Dock homology region-1), also called CZH1 (CED-5,
Dock180, and MBC-zizimin homology 1), and DHR-2 (also
called CZH2 or Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of class D DOCKs, which
contains the catalytic GEF activity for Cdc42. Class D
DOCKs also contain a Pleckstrin homology (PH) domain at
the N-terminus.
Length = 376
Score = 387 bits (996), Expect = e-121
Identities = 172/422 (40%), Positives = 239/422 (56%), Gaps = 50/422 (11%)
Query: 1572 LRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFISPNC 1631
LR TWL +MA+ H + N +EA MC +H AALVAEYL
Sbjct: 2 LRKTWLESMARIHEKNGNFSEAAMCYIHIAALVAEYLKR--------------------- 40
Query: 1632 LEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIFPIV 1691
D+L + LLE + A YE + +YK+I PI
Sbjct: 41 -------KDLL------------------LELLEACVEGLWKAERYELLGELYKLIIPIY 75
Query: 1692 EKSRDYKKLSNIHSKLHDAYVKLYQIQ--GKRVFGTYFRVGFYG-MKFGDLNNEEFIYKE 1748
EK RD+++L++ + LH AY K+ ++ GKR+ GTY+RV FYG F + + +E+IYKE
Sbjct: 76 EKRRDFEQLADCYRTLHRAYEKVVEVMESGKRLLGTYYRVAFYGQAFFEEEDGKEYIYKE 135
Query: 1749 PTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYE 1808
P +T L EI RL Y ++FG N+ +I+DS V+ LDP AYIQ+T+V PYF+ E
Sbjct: 136 PKVTSLSEISERLLKLYGDKFGSENVKLIQDSGKVNPKDLDPKYAYIQVTHVTPYFDEKE 195
Query: 1809 KRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVVD 1868
R+T FE+N NI+ F++ TPFT +GKA G + EQ+KR+TILTT+ FPYVK RI VV
Sbjct: 196 LEDRKTEFERNHNIRRFVFETPFTLSGKARGAVEEQWKRRTILTTSHSFPYVKKRIPVVQ 255
Query: 1869 RKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVVF 1928
R+ I L+PIEVAI+++Q K +EL I EP D K LQ+ LQG + VN GP+ A F
Sbjct: 256 REIIELSPIEVAIDEMQSKVKELEELISTEPVDMKKLQLRLQGSVSVQVNAGPLAYARAF 315
Query: 1929 LSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFTD 1988
L +++ L+ F+DF K C AL N+ LI DQ++Y + L+ NY +
Sbjct: 316 LEPTTVKNYPDDQVE-DLKDVFRDFIKACGQALELNERLIKEDQREYHEVLKENYRKMVK 374
Query: 1989 KL 1990
+L
Sbjct: 375 EL 376
>gnl|CDD|212573 cd11700, DHR2_DOCK11, Dock Homology Region 2, a GEF domain, of Class
D Dedicator of Cytokinesis 11. Dock11, also called
Zizimin2 or activated Cdc42-associated GEF (ACG), is an
atypical guanine nucleotide exchange factor (GEF) that
lacks the conventional Dbl homology (DH) domain. As a
GEF, it activates the small GTPase Cdc42 by exchanging
bound GDP for free GTP. Dock11 is predominantly expressed
in lymphocytes and is found in high levels in germinal
center B lymphocytes after T cell dependent antigen
immunization. DOCK proteins are divided into four classes
(A-D) based on sequence similarity and domain
architecture; class D includes Dock9, 10 and 11. All
DOCKs contain two homology domains: the DHR-1 (Dock
homology region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock11, which
contains the catalytic GEF activity for Cdc42. Class D
DOCKs also contain a Pleckstrin homology (PH) domain at
the N-terminus.
Length = 413
Score = 346 bits (889), Expect = e-106
Identities = 180/424 (42%), Positives = 252/424 (59%), Gaps = 14/424 (3%)
Query: 1570 PNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFISP 1629
P LR TWL +MA+ H++ + +EA MC VH AALVAE+LH + P G + + I+P
Sbjct: 1 PELRKTWLDSMAKIHVKNGDFSEAAMCYVHVAALVAEFLH---RKKLFPSGCAAFKKITP 57
Query: 1630 NCLEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIFP 1689
N EE A+ +D + ++E V LLE + A YE ++ + K+I P
Sbjct: 58 NIDEEGAMKED-------IGMMDVHYSEEVLVELLEQCVDGLWKAERYELISEISKLIIP 110
Query: 1690 IVEKSRDYKKLSNIHSKLHDAYVKLYQIQ--GKRVFGTYFRVGFYGMKF-GDLNNEEFIY 1746
I EK R+++KL+ ++ LH AY K+ ++ GKR+ GT+FRV FYG F + + +E+IY
Sbjct: 111 IYEKRREFEKLTQLYRTLHGAYAKILEVMHTGKRLLGTFFRVAFYGQGFFEEEDGKEYIY 170
Query: 1747 KEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFEN 1806
KEP LT L EI RL Y E+FG N+ II+DSN V+ LDP A+IQ+TYV+PYF++
Sbjct: 171 KEPKLTGLSEISHRLLKLYGEKFGSENVKIIQDSNKVNQKDLDPKYAHIQVTYVKPYFDD 230
Query: 1807 YEKRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQV 1866
E R+T FE+N NI+ F++ TP+T +GK G + EQ KR+TILTTA FPYVK RI V
Sbjct: 231 KEMAERKTEFERNHNIQRFVFETPYTLSGKKQGGVEEQCKRRTILTTANSFPYVKKRIPV 290
Query: 1867 VDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAV 1926
KQ L PI+VA ++I+ KT EL + D LQ+ LQGC+ VN GP+ A
Sbjct: 291 NGEKQTNLKPIDVATDEIKDKTAELQKLCSNQDVDMIQLQLKLQGCVSVQVNAGPLAYAR 350
Query: 1927 VFLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRF 1986
FL D K P K +L+ F+ F + C AL N+ LI DQ +Y + L+ N+
Sbjct: 351 AFLDD-SQASKYPNKKVKELKEMFRKFIQACSIALELNERLIKEDQVEYHEGLKSNFRDM 409
Query: 1987 TDKL 1990
+L
Sbjct: 410 VKEL 413
>gnl|CDD|212566 cd11684, DHR2_DOCK, Dock Homology Region 2, a GEF domain, of
Dedicator of Cytokinesis proteins. DOCK proteins
comprise a family of atypical guanine nucleotide exchange
factors (GEFs) that lack the conventional Dbl homology
(DH) domain. As GEFs, they activate the small GTPases Rac
and Cdc42 by exchanging bound GDP for free GTP. They are
also called the CZH (CED-5, Dock180, and MBC-zizimin
homology) family, after the first family members
identified. Dock180 was first isolated as a binding
partner for the adaptor protein Crk. The Caenorhabditis
elegans protein, Ced-5, is essential for cell migration
and phagocytosis, while the Drosophila ortholog, Myoblast
city (MBC), is necessary for myoblast fusion and dorsal
closure. DOCKs are divided into four classes (A-D) based
on sequence similarity and domain architecture: class A
includes Dock1 (or Dock180), 2 and 5; class B includes
Dock3 and 4; class C includes Dock6, 7, and 8; and class
D includes Dock9, 10 and 11. All DOCKs contain two
homology domains: the DHR-1 (Dock homology region-1),
also called CZH1, and DHR-2 (also called CZH2 or Docker).
This alignment model represents the DHR-2 domain of DOCK
proteins, which contains the catalytic GEF activity for
Rac and/or Cdc42.
Length = 392
Score = 330 bits (848), Expect = e-101
Identities = 139/429 (32%), Positives = 203/429 (47%), Gaps = 48/429 (11%)
Query: 1572 LRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFISPNC 1631
L + +L +A H ER N+ EA +CL+ A L A L
Sbjct: 2 LYIRYLHKLADLHEERGNYVEAALCLLLHADLYAWDL----------------------- 38
Query: 1632 LEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIFPIV 1691
++ E + + + L + A F +E +YK + P
Sbjct: 39 -------KALVPALAESLSFPEQTSFERKEALYKKAIDLFDKGKAWEFAIALYKELIPQY 91
Query: 1692 EKSRDYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKF-GDLNNEEFIYKEPT 1750
E + DY KLS +H K+ Y K+ + R+F TYFRVGFYG F L +EFIY+ P
Sbjct: 92 ENNFDYAKLSEVHRKIAKLYEKI--AEKDRLFPTYFRVGFYGKGFPESLRGKEFIYRGPE 149
Query: 1751 LTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKR 1810
+L + RL++ Y II+ S D LD + YIQIT VEPYF++ +
Sbjct: 150 FERLGDFCERLKSLYPGAE------IIQSSEEPDDEILDSEGQYIQITSVEPYFDDEDLV 203
Query: 1811 YRE----THFEQNFNIKTFMYATPFTTTGKA-HGELHEQYKRKTILTTATHFPYVKTRIQ 1865
R F +N NI TF+Y PFT GK E+ +Q+K +TILTT FP + R +
Sbjct: 204 SRAAPGVRQFYRNNNINTFVYERPFTKGGKKSQNEITDQWKERTILTTEESFPTILRRSE 263
Query: 1866 VVDRKQIILTPIEVAIEDIQKKTQELSNSIRQ----EPPDPKILQMVLQGCIGTTVNQGP 1921
VV ++I L+PIE AIEDI+KKT+EL + I + + P+ LQM+LQG + VN GP
Sbjct: 264 VVSIEEIELSPIENAIEDIEKKTEELRSLINKYRSGDSPNVNPLQMLLQGTVDAAVNGGP 323
Query: 1922 MEMAVVFLSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELER 1981
+ A FLS+ + KL+ F++F + L + L P+ +ELE
Sbjct: 324 VAYAEAFLSEEYLSNYPEAEKVKKLKEAFEEFLEILKRGLALHAKLCPPEMAPLHEELEE 383
Query: 1982 NYHRFTDKL 1990
+ + +L
Sbjct: 384 GFEKLFKEL 392
>gnl|CDD|176078 cd08696, C2_Dock-C, C2 domains found in Dedicator Of CytoKinesis
(Dock) class C proteins. Dock-C is one of 4 classes of
Dock family proteins. The members here include:
Dock6/Zir1, Dock7/Zir2, and Dock8/Zir3. Dock-C members
are GEFs for both Rac and Cdc42. In addition to the C2
domain (AKA Dock homology region (DHR)-1, CED-5,
Dock180, MBC-zizimin homology (CZH) 1) and the DHR-2
(AKA CZH2, or Docker), which all Dock180-related
proteins have, Dock-C members contain a functionally
uncharacterized domain upstream of the C2 domain. DHR-2
has the catalytic activity for Rac and/or Cdc42, but is
structurally unrelated to the DH domain. The C2/DHR-1
domains of Dock180 and Dock4 have been shown to bind
phosphatidylinositol-3, 4, 5-triphosphate
(PtdIns(3,4,5)P3). The C2 domain was first identified in
PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions.
Length = 179
Score = 317 bits (814), Expect = 1e-99
Identities = 115/179 (64%), Positives = 138/179 (77%)
Query: 540 YRNLLFVYPKEINFTGRTGSARNLTVKVQLMYGETPESALPAIFGKSSCPEFTTEAYTSV 599
YRNLL+VYP+ +NF+ R GSARN+ VKVQLM GE ALP IF SS EF TEAYT+V
Sbjct: 1 YRNLLYVYPQSLNFSNRLGSARNIAVKVQLMSGEDESQALPVIFKGSSPEEFLTEAYTAV 60
Query: 600 IYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQKKLEQNTVETPVGYTWLPLLKDG 659
YHNK P DEIKI+LP L D HHLLFTFYHISCQKK E +VETP+GYTWLPLL++G
Sbjct: 61 TYHNKSPDFYDEIKIKLPADLTDNHHLLFTFYHISCQKKQEGGSVETPIGYTWLPLLRNG 120
Query: 660 QLQLNDFCLPVTLEAPPPNYSYITPDVLLPGLKWVDNHKSIFNVVLSAASSIHPQDTHI 718
+LQ +F LPV+LE PP NYS +P+V LPG KWVDNHK +F+V + A SS+H QD+++
Sbjct: 121 RLQSGEFNLPVSLEKPPSNYSPDSPEVKLPGTKWVDNHKGVFSVSVEAVSSVHTQDSYL 179
>gnl|CDD|212571 cd11698, DHR2_DOCK9, Dock Homology Region 2, a GEF domain, of Class D
Dedicator of Cytokinesis 9. Dock9, also called Zizimin1,
is an atypical guanine nucleotide exchange factor (GEF)
that lacks the conventional Dbl homology (DH) domain. As
a GEF, it activates the small GTPase Cdc42 by exchanging
bound GDP for free GTP. It plays important roles in spine
formation and dendritic growth. DOCK proteins are divided
into four classes (A-D) based on sequence similarity and
domain architecture; class D includes Dock9, 10 and 11.
All DOCKs contain two homology domains: the DHR-1 (Dock
homology region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock9, which
contains the catalytic GEF activity for Cdc42. Class D
DOCKs also contain a Pleckstrin homology (PH) domain at
the N-terminus.
Length = 415
Score = 323 bits (829), Expect = 3e-98
Identities = 173/422 (40%), Positives = 246/422 (58%), Gaps = 14/422 (3%)
Query: 1572 LRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLHMIEEQPYLPLGAVSLEFISPNC 1631
LR TWL +MA+ H++ + +EA MC VH AALVAEYL + G + I+PN
Sbjct: 2 LRKTWLDSMARIHVKNGDLSEAAMCYVHVAALVAEYL---TRKGMFRQGCTAFRVITPNI 58
Query: 1632 LEECAVSDDVLSPEQEGVCLGKDFTESGFVCLLEHAASSFYTAGMYETVNNVYKVIFPIV 1691
EE ++ +DV + F E + LLE A + A YE + ++YK+I PI
Sbjct: 59 DEEASMMEDVGMQDVH-------FNEDVLMELLEQCADGLWKAERYELIADIYKLIIPIY 111
Query: 1692 EKSRDYKKLSNIHSKLHDAYVKLYQI--QGKRVFGTYFRVGFYGMKF-GDLNNEEFIYKE 1748
EK RD+++L++++ LH AY K+ ++ GKR+ GTYFRV F+G F D + +E+IYKE
Sbjct: 112 EKRRDFERLAHLYDTLHRAYSKVTEVMHSGKRLLGTYFRVAFFGQGFFEDEDGKEYIYKE 171
Query: 1749 PTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYE 1808
P LT L EI RL Y+++FG N+ +I+DS V+ LD AYIQ+T+V PYF+ E
Sbjct: 172 PKLTPLSEISQRLLKLYSDKFGSENVKMIQDSGKVNPKDLDSKYAYIQVTHVTPYFDEKE 231
Query: 1809 KRYRETHFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVVD 1868
+ R+T FE++ NI+ FM+ PFT +GK G + EQ KR+TILT FPYVK RI V+
Sbjct: 232 LQERKTDFERSHNIRRFMFEMPFTQSGKRQGGVEEQCKRRTILTAIHCFPYVKKRIPVMY 291
Query: 1869 RKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVVF 1928
+ L PIEVAI+++ KK EL D LQ+ LQG + VN GP+ A F
Sbjct: 292 QHHTDLNPIEVAIDEMSKKVAELRQLCSSAEVDMIKLQLKLQGSVSVQVNAGPLAYARAF 351
Query: 1929 LSDLLDGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFTD 1988
L D + ++ P L+ F+ F + C AL N+ LI DQ +YQ+E++ NY
Sbjct: 352 LDD-TNTKRYPDNKVKLLKEVFRQFVEACGQALAVNERLIKEDQLEYQEEMKANYREMAK 410
Query: 1989 KL 1990
+L
Sbjct: 411 EL 412
>gnl|CDD|212572 cd11699, DHR2_DOCK10, Dock Homology Region 2, a GEF domain, of Class
D Dedicator of Cytokinesis 10. Dock10, also called
Zizimin3, is an atypical guanine nucleotide exchange
factor (GEF) that lacks the conventional Dbl homology
(DH) domain. As a GEF, it activates the small GTPase
Cdc42 by exchanging bound GDP for free GTP. Dock10 is
preferentially expressed in lymphocytes and may play a
role in interleukin-4 induced activation of B cells. It
may also play a role in the invasion of tumor cells. DOCK
proteins are divided into four classes (A-D) based on
sequence similarity and domain architecture; class D
includes Dock9, 10 and 11. All DOCKs contain two homology
domains: the DHR-1 (Dock homology region-1), also called
CZH1 (CED-5, Dock180, and MBC-zizimin homology 1), and
DHR-2 (also called CZH2 or Docker). The DHR-1 domain
binds phosphatidylinositol-3,4,5-triphosphate. This
alignment model represents the DHR-2 domain of Dock10,
which contains the catalytic GEF activity for Cdc42.
Class D DOCKs also contain a Pleckstrin homology (PH)
domain at the N-terminus.
Length = 446
Score = 310 bits (796), Expect = 1e-93
Identities = 178/454 (39%), Positives = 251/454 (55%), Gaps = 41/454 (9%)
Query: 1570 PNLRLTWLANMAQKHMERNNHTEAGMCLVHSAALVAEYLH----------------MIEE 1613
P LR TWL +MA+ H + +EA MC +H AAL+AEYL +
Sbjct: 1 PELRRTWLESMAKIHARNGDLSEAAMCYIHIAALIAEYLKRKGYWKMEKICTSSMLPEDS 60
Query: 1614 QPY--------------LPLGAVSLEFISPNCLEECAVSDDVLSPEQEGVCLGKDFTESG 1659
Q Y +G + I+PN EE A+ +D S Q+ + E+
Sbjct: 61 QVYDSNLLLTTSTGGSMFSMGWPAFLSITPNIKEEGAMKED--SGMQD-----TPYNENT 113
Query: 1660 FVCLLEHAASSFYTAGMYETVNNVYKVIFPIVEKSRDYKKLSNIHSKLHDAYVKLYQI-- 1717
V LE + + YE + +V K + + EK RD+K+LS ++ +H +Y+K+ ++
Sbjct: 114 LVEQLELCVDYLWKSERYELIADVNKPVIAVFEKQRDFKRLSELYYDIHRSYLKVAEVVN 173
Query: 1718 QGKRVFGTYFRVGFYGMKF-GDLNNEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMI 1776
KR+FG Y+RV FYG F + +E+IYKEP LT L EI RL YA++FG +N+ I
Sbjct: 174 SEKRLFGRYYRVAFYGQGFFEEEEGKEYIYKEPKLTGLSEISQRLLKLYADKFGADNVKI 233
Query: 1777 IKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRETHFEQNFNIKTFMYATPFTTTGK 1836
I+DSN V+ LDP AYIQ+TYV PYF+ E+ R+T FE + NI F++ TPFT +GK
Sbjct: 234 IQDSNKVNPKELDPKFAYIQVTYVTPYFDEKEQEDRKTDFEMHHNINRFVFETPFTLSGK 293
Query: 1837 AHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIR 1896
HG + EQ KR+TILTT+ FPYVK RIQVV + L PIEVAI+++ KK EL+
Sbjct: 294 KHGGVEEQCKRRTILTTSHSFPYVKKRIQVVSQTSTELNPIEVAIDEMSKKVSELNQLCT 353
Query: 1897 QEPPDPKILQMVLQGCIGTTVNQGPMEMAVVFLSDLLDGEKSPTKLQNKLRLCFKDFSKK 1956
E D LQ+ LQG + VN GPM A FL + + +K P L+ F+ F++
Sbjct: 354 MEEVDMIRLQLKLQGSVSVKVNAGPMAYARAFLEE-TNAKKYPDNQVKLLKEIFRQFAEA 412
Query: 1957 CCDALRKNKTLIGPDQKDYQKELERNYHRFTDKL 1990
C AL N+ LI DQ +YQ+E+ +Y +L
Sbjct: 413 CGQALDVNERLIKEDQLEYQEEMRSHYRDMLSEL 446
>gnl|CDD|219229 pfam06920, Ded_cyto, Dedicator of cytokinesis. This family
represents a conserved region approximately 200 residues
long within a number of eukaryotic dedicator of
cytokinesis proteins. These are potential guanine
nucleotide exchange factors, which activate some small
GTPases by exchanging bound GDP for free GTP.
Length = 178
Score = 254 bits (650), Expect = 1e-77
Identities = 87/179 (48%), Positives = 118/179 (65%), Gaps = 1/179 (0%)
Query: 1814 THFEQNFNIKTFMYATPFTTTGKAHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQII 1873
T+FE+N N+ F++ TPFT GK GE+ EQ+KR+TILTT FPY+K RI+VV ++++
Sbjct: 1 TYFERNNNVNRFVFDTPFTKGGKKQGEVEEQWKRRTILTTENAFPYIKKRIEVVSKEEVE 60
Query: 1874 LTPIEVAIEDIQKKTQELSNSIRQEPPDPKILQMVLQGCIGTTVNQGPMEMAVVFLSDLL 1933
L+PIEVAIEDI KKT EL+ I Q PP+ LQM+LQG + VN GP++ A VFLS+
Sbjct: 61 LSPIEVAIEDISKKTAELAALISQYPPNINPLQMLLQGSVDVQVNGGPLKYAEVFLSEDY 120
Query: 1934 DGEKSPTKLQNKLRLCFKDFSKKCCDALRKNKTLIGPDQKDYQKELERNYHRFTDKLMP 1992
K NKL+ F+DF K C +AL ++ LI DQK+ Q+ELE + +L P
Sbjct: 121 ANPY-QAKHVNKLKKAFRDFLKICGEALELHEKLIPEDQKELQEELESGFEELKKELSP 178
>gnl|CDD|222580 pfam14180, DOCK_C2, GTP-GDP exchange factor. Dock proteins are
atypical GTP-GDP exchange factors for the small GTPases
Pac and Cdc42, and are implicated in biological roles
related to cell-migration and phagocytosis.
Length = 178
Score = 192 bits (491), Expect = 4e-56
Identities = 81/183 (44%), Positives = 109/183 (59%), Gaps = 10/183 (5%)
Query: 540 YRNLLFVYPKEINFTGRT-GSARNLTVKVQLMY--GETPESALPAIFGKSSCPEFTTEAY 596
YRN L+VYPK + F+ + ARN+ V V+L GE E LP I+ +SS P + A+
Sbjct: 2 YRNDLYVYPKSLKFSKQPKSKARNIVVTVELRDSDGEVLEEGLPIIYNRSSGPSLVSSAF 61
Query: 597 TSVIYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQKKLEQNTVETPVGYTWLPLL 656
+SV YHNK P +DE K+QLP L HHLLFTFYH+S +KK + VETP+GY +LPLL
Sbjct: 62 SSVSYHNKNPQFNDEFKLQLPLDLTPGHHLLFTFYHVSVKKK--KKKVETPIGYAFLPLL 119
Query: 657 KDGQ-LQLNDFCLPVTLEAPPPNYSYITPDVLLPGLKWVDNHKSIFNVVLSAASSIHPQD 715
G ++ + LPV E PP S T P +KW+DN K +F V S+++ QD
Sbjct: 120 DKGGFIRDGEHTLPVYKELPPGYLSEST----SPNMKWLDNGKPVFKVSTRLCSTVYTQD 175
Query: 716 THI 718
+
Sbjct: 176 PTL 178
>gnl|CDD|222746 pfam14429, DOCK-C2, C2 domain in Dock180 and Zizimin proteins. The
Dock180/Dock1 and Zizimin proteins are atypical GTP/GDP
exchange factors for the small GTPases Rac and Cdc42 and
are implicated cell-migration and phagocytosis. Across
all Dock180 proteins, two regions are conserved:
C-terminus termed CZH2 or DHR2 (or the Dedicator of
cytokinesis) whereas CZH1/DHR1 contain a new family of
the C2 domain.
Length = 179
Score = 190 bits (486), Expect = 1e-55
Identities = 76/185 (41%), Positives = 98/185 (52%), Gaps = 8/185 (4%)
Query: 536 PHYLYRNLLFVYPKEINF-TGRTGSARNLTVKVQLMYGETPESALPAIFGKSSCPEFTTE 594
P YRN L+VY K NF + ARN+ V V+L + L I+ +SS T
Sbjct: 1 PPTDYRNDLYVYLKSANFSKPKKSKARNIEVTVELRDSDGSSKPLKCIYPRSSNESLVTS 60
Query: 595 AYTSVIYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQKKLEQNTVETPVGYTWLP 654
Y+SV+YHNK P +DEIKIQLP L HHLLFTFYH+S + E E P G+ WLP
Sbjct: 61 YYSSVLYHNKNPVFNDEIKIQLPLPLTPSHHLLFTFYHVSAK---ESKKKEKPFGFAWLP 117
Query: 655 LLKDGQLQLND-FCLPVTLEAPPPNYSYITPDVLLPGLKWVDNHKSIFNVVLSAASSIHP 713
L+ DG + LPV E PPNY + P + VD K +F V S+++
Sbjct: 118 LMDDGTTIQDGEHTLPVYSENLPPNYLSLPPSAMEKN---VDGKKPVFTVSTRLCSTVYT 174
Query: 714 QDTHI 718
QD H+
Sbjct: 175 QDPHL 179
>gnl|CDD|176079 cd08697, C2_Dock-D, C2 domains found in Dedicator Of CytoKinesis
(Dock) class C proteins. Dock-D is one of 4 classes of
Dock family proteins. The members here include:
Dock9/Zizimin1, Dock10/Zizimin3, and Dock11/Zizimin2/ACG
(activated Cdc42-associated GEF). Dock-D are
Cdc42-specific GEFs. In addition to the C2 domain (AKA
Dock homology region (DHR)-1, CED-5, Dock180,
MBC-zizimin homology (CZH) 1) and the DHR-2 (AKA CZH2,
or Docker), which all Dock180-related proteins have,
Dock-D members contain a functionally uncharacterized
domain and a PH domain upstream of the C2 domain. DHR-2
has the catalytic activity for Rac and/or Cdc42, but is
structurally unrelated to the DH domain. The C2/DHR-1
domains of Dock180 and Dock4 have been shown to bind
phosphatidylinositol-3, 4, 5-triphosphate
(PtdIns(3,4,5)P3). The PH domain broadly binds to
phospholipids and is thought to be involved in targeting
the plasma membrane. The C2 domain was first identified
in PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions.
Length = 185
Score = 165 bits (421), Expect = 9e-47
Identities = 79/188 (42%), Positives = 106/188 (56%), Gaps = 14/188 (7%)
Query: 540 YRNLLFVYPKEINFTGRTGS--ARNLTVKVQLMYGETPESALP--AIFGKSSCPEFTTEA 595
Y+N L+VYP + + + ARN+ V ++ + E A P I+ FTT A
Sbjct: 1 YKNHLYVYPLHLKYDSQKTFAKARNIAVCIEFRDSDE-EDAKPLKCIYYGPGGG-FTTSA 58
Query: 596 YTSVIYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQ---KKLEQNTVETPVGYTW 652
Y +V++HN+ P DEIKI+LP L +KHHLLFTFYH+SC K +++ VETPVGY W
Sbjct: 59 YAAVLHHNQNPEFYDEIKIELPTQLHEKHHLLFTFYHVSCDINKKGKKKDGVETPVGYAW 118
Query: 653 LPLLKD-GQLQLNDFCLPV--TLEAPPPNYSYITPDVLLPGLKWVDNHKSIFNVVLSAAS 709
LPLLKD G+L + PV L P Y I P P +KWVD K +F V S
Sbjct: 119 LPLLKDKGRLNSEEQTPPVANLLPNYPDGYLSIQPHG--PEVKWVDGGKPLFKVSTHLVS 176
Query: 710 SIHPQDTH 717
+++ QD H
Sbjct: 177 TVYTQDQH 184
>gnl|CDD|176061 cd08679, C2_DOCK180_related, C2 domains found in Dedicator Of
CytoKinesis 1 (DOCK 180) and related proteins. Dock180
was first identified as an 180kd proto-oncogene product
c-Crk-interacting protein involved in actin cytoskeletal
changes. It is now known that it has Rac-specific GEF
activity, but lacks the conventional Dbl homology (DH)
domain. There are 10 additional related proteins that
can be divided into four classes based on sequence
similarity and domain organization: Dock-A which
includes Dock180/Dock1, Dock2, and Dock5; Dock-B which
includes Dock3/MOCA (modifier of cell adhesion) and
Dock4; Dock-C which includes Dock6/Zir1, Dock7/Zir2, and
Dock8/Zir3; and Dock-D, which includes Dock9/Zizimin1,
Dock10/Zizimin3, and Dock11/Zizimin2/ACG (activated
Cdc42-associated GEF). Most of members of classes
Dock-A and Dock-B are the GEFs specific for Rac. Those
of Dock-D are Cdc42-specific GEFs while those of Dock-C
are the GEFs for both. All Dock180-related proteins have
two common homology domains: the C2 domain (AKA Dock
homology region (DHR)-1, CED-5, Dock180, MBC-zizimin
homology (CZH) 1) and the DHR-2 (AKA CZH2, or Docker).
DHR-2 has the catalytic activity for Rac and/or Cdc42,
but is structurally unrelated to the DH domain. The
C2/DHR-1 domains of Dock180 and Dock4 have been shown to
bind phosphatidylinositol-3, 4, 5-triphosphate
(PtdIns(3,4,5)P3). The C2 domain was first identified in
PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions.
Length = 178
Score = 145 bits (367), Expect = 2e-39
Identities = 60/182 (32%), Positives = 86/182 (47%), Gaps = 7/182 (3%)
Query: 540 YRNLLFVYPKEINFTGRTGSARNLTVKVQLMYGETPESALPAIFGKSSCPEFTTEAYTSV 599
RN L+VYP+ + RN+ + V++ + + P I YTSV
Sbjct: 1 LRNDLYVYPQSGELSKAKSKGRNIEITVEVRDDDG-DIIEPCISA-PGSGSELRSEYTSV 58
Query: 600 IYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQKKLEQNTVETPVGYTWLPLLKDG 659
+Y++K P +DEIKIQLP L +HHLLFTFYH+S +KK ETP GY +LPL+
Sbjct: 59 VYYHKNPVFNDEIKIQLPADLTPQHHLLFTFYHVSSKKKQGDKE-ETPFGYAFLPLMDKD 117
Query: 660 Q--LQLNDFCLPVTLEAPPPNYSYITPDVLLPGLKW-VDNHKSIFNVVLSAASSIHPQDT 716
++ D LPV P+ + LP + K F + S+I QD
Sbjct: 118 GAFIKDGDHTLPVYKYDKRPDVGPSG-YLSLPSTLANGKSSKDTFKIKTRLCSTILTQDK 176
Query: 717 HI 718
+
Sbjct: 177 SL 178
>gnl|CDD|221285 pfam11878, DUF3398, Domain of unknown function (DUF3398). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is about 100
amino acids in length.
Length = 98
Score = 105 bits (265), Expect = 8e-27
Identities = 36/98 (36%), Positives = 58/98 (59%), Gaps = 4/98 (4%)
Query: 36 LQQSLLIDRDPLKHLLEFPVDDIQVCVLPRKIRTVKPLLPKEPLSE-LEPHVRECIECYT 94
+Q ++ DPL+ LLEFP DDI+V +PR+ RT++ +P++ + HVREC++ YT
Sbjct: 1 MQHKPQLENDPLRDLLEFPDDDIEVKTIPRECRTLESSVPEDAEELAEDLHVRECVKSYT 60
Query: 95 RNWIYVDYRYRHFSTS---SWFIDRTTLASNLPRQEFE 129
+W V+ +Y+H+S + L+ LP Q FE
Sbjct: 61 SDWHVVNRKYQHYSGDYRPLLPSKQRELSKGLPSQVFE 98
>gnl|CDD|212569 cd11696, DHR2_DOCK_B, Dock Homology Region 2, a GEF domain, of Class
B Dedicator of Cytokinesis proteins. DOCK proteins are
atypical guanine nucleotide exchange factors (GEFs) that
lack the conventional Dbl homology (DH) domain. As GEFs,
they activate small GTPases by exchanging bound GDP for
free GTP. They are divided into four classes (A-D) based
on sequence similarity and domain architecture; class B
includes Dock3 and 4. Dock3 is a specific GEF for Rac and
it regulates N-cadherin dependent cell-cell adhesion,
cell polarity, and neuronal morphology. It promotes
axonal growth by stimulating actin polymerization and
microtubule assembly. Dock4 activates the Ras family
GTPase Rap1, probably indirectly through interaction with
Rap regulatory proteins. It plays a role in regulating
dendritic growth and branching in hippocampal neurons,
where it is highly expressed. All DOCKs contain two
homology domains: the DHR-1 (Dock homology region-1),
also called CZH1 (CED-5, Dock180, and MBC-zizimin
homology 1), and DHR-2 (also called CZH2 or Docker). The
DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of class B DOCKs, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class B DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus.
Length = 391
Score = 83.6 bits (207), Expect = 1e-16
Identities = 70/245 (28%), Positives = 102/245 (41%), Gaps = 28/245 (11%)
Query: 1692 EKSRDYKKLSNI---HSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYK 1747
E DY KLS+I + +D L Q+ R YFRVGFYG F L N++F+Y+
Sbjct: 88 ESLYDYAKLSHILRMEASFYDNI--LTQL---RPEPEYFRVGFYGKGFPLFLRNKQFVYR 142
Query: 1748 EPTLTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENY 1807
++ RL++ + + I+ + P D L D YIQI V+P E
Sbjct: 143 GLDYERIGAFTQRLQSEFPQ------AHILTKNTPPDDAILQADGQYIQICNVKPVPERR 196
Query: 1808 EKRYRE-------THFEQNFNIKTFMYATPF-TTTGKAHGELHEQYKRKTILTTATHFPY 1859
+ + N +++ F Y P E + +T L T P
Sbjct: 197 PVLQMVGVPDKVRSFYRVN-DVRKFQYDRPIHKGPIDKDNEFKSLWIERTTLVTEHSLPG 255
Query: 1860 VKTRIQVVDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPK----ILQMVLQGCIGT 1915
+ +VV R+ + P+E A E ++ K QEL + I Q DP M LQG I
Sbjct: 256 ILRWFEVVSREVEEIPPVENACETVENKNQELRSLISQYQADPTRNINPFSMRLQGVIDA 315
Query: 1916 TVNQG 1920
VN G
Sbjct: 316 AVNGG 320
>gnl|CDD|212570 cd11697, DHR2_DOCK_A, Dock Homology Region 2, a GEF domain, of Class
A Dedicator of Cytokinesis proteins. DOCK proteins are
atypical guanine nucleotide exchange factors (GEFs) that
lack the conventional Dbl homology (DH) domain. As GEFs,
they activate small GTPases by exchanging bound GDP for
free GTP. They are divided into four classes (A-D) based
on sequence similarity and domain architecture; class A
includes Dock1, 2 and 5. Class A DOCKs are specific GEFs
for Rac. Dock1 interacts with the scaffold protein Elmo
and the resulting complex functions upstream of Rac in
many biological events including phagocytosis of
apoptotic cells, cell migration and invasion. Dock2 plays
an important role in lymphocyte migration and activation,
T-cell differentiation, neutrophil chemotaxis, and type I
interferon induction. Dock5 functions upstream of Rac1 to
regulate osteoclast function. All DOCKs contain two
homology domains: the DHR-1 (Dock homology region-1),
also called CZH1 (CED-5, Dock180, and MBC-zizimin
homology 1), and DHR-2 (also called CZH2 or Docker). The
DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of class A DOCKs, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class A DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus.
Length = 400
Score = 75.1 bits (185), Expect = 1e-13
Identities = 61/248 (24%), Positives = 108/248 (43%), Gaps = 20/248 (8%)
Query: 1696 DYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYKEPTLTKL 1754
DY +LS + ++ Y + ++ R YFRVG+YG F L N+ FIY+ +L
Sbjct: 97 DYLQLSELLKRMATFYDNI--MKTLRPEPEYFRVGYYGQGFPSFLRNKVFIYRGKEYERL 154
Query: 1755 PEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRET 1814
+ +RL N + N ++ P + Y+QI V+P + + +
Sbjct: 155 SDFSARLLNQFP------NAELMNTLTPPGDEIKESPGQYLQINKVDPVMDERPRFKGKP 208
Query: 1815 HFEQ--NF----NIKTFMYATPFTTTGKAHG-ELHEQYKRKTILTTATHFPYVKTRIQVV 1867
+Q N+ ++ F ++ PF K E + +T LTTA P + +VV
Sbjct: 209 VSDQILNYYKVNEVQRFTFSRPFRRGTKDPDNEFANMWLERTTLTTAYKLPGILRWFEVV 268
Query: 1868 DRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKI----LQMVLQGCIGTTVNQGPME 1923
+ ++P+E AIE ++ +++ + I Q DP + L M+L G + V G
Sbjct: 269 STSTVEISPLENAIETMEDTNKKIRDLILQHQSDPTLPINPLSMLLNGIVDAAVMGGIAN 328
Query: 1924 MAVVFLSD 1931
F ++
Sbjct: 329 YEKAFFTE 336
>gnl|CDD|212578 cd11705, DHR2_DOCK4, Dock Homology Region 2, a GEF domain, of Class B
Dedicator of Cytokinesis 4. Dock4 is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates small GTPases by exchanging bound GDP for free
GTP. It plays a role in regulating dendritic growth and
branching in hippocampal neurons, where it is highly
expressed. It may also regulate spine morphology and
synapse formation. Dock4 activates the Ras family GTPase
Rap1, probably indirectly through interaction with Rap
regulatory proteins. DOCK proteins are divided into four
classes (A-D) based on sequence similarity and domain
architecture; class B includes Dock3 and 4. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock4, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class B DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus.
Length = 391
Score = 68.1 bits (166), Expect = 2e-11
Identities = 67/241 (27%), Positives = 103/241 (42%), Gaps = 20/241 (8%)
Query: 1692 EKSRDYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYKEPT 1750
E DY+ LS + Y K+ Q R+ +FRVGFYG KF L N+EF+ +
Sbjct: 88 ESYYDYRNLSKMRMMEASLYDKIMDQQ--RLEPEFFRVGFYGKKFPFFLRNKEFVCRGHD 145
Query: 1751 LTKLPEIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKR 1810
+L R+ N + + + ++ +N D + Y+QI V P E+ E
Sbjct: 146 YERLEAFQQRMLNEFP------HAIAMQHANQPDETIFQAEAQYLQIYAVTPIPESQEVL 199
Query: 1811 YRE------THFEQNFNIKTFMYATPF-TTTGKAHGELHEQYKRKTILTTATHFPYVKTR 1863
R+ F + +I F Y PF T E + +T LT P +
Sbjct: 200 QRDGVPDNIKSFYKVNHIWRFRYDRPFHKGTKDKENEFKSLWVERTTLTLVQSLPGISRW 259
Query: 1864 IQVVDRKQIILTPIEVAIEDIQKKTQELSNSIRQ----EPPDPKILQMVLQGCIGTTVNQ 1919
+V R+ + ++P+E AIE ++ K Q+L I Q + + L M L G I VN
Sbjct: 260 FEVEKREVVEMSPLENAIEVLENKNQQLRTLISQCQTRQMQNINPLTMCLNGVIDAAVNG 319
Query: 1920 G 1920
G
Sbjct: 320 G 320
>gnl|CDD|212577 cd11704, DHR2_DOCK3, Dock Homology Region 2, a GEF domain, of Class B
Dedicator of Cytokinesis 3. Dock3, also called modifier
of cell adhesion (MOCA), is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates small GTPases by exchanging bound GDP for free
GTP. Dock3 is a specific GEF for Rac. It regulates
N-cadherin dependent cell-cell adhesion, cell polarity,
and neuronal morphology. It promotes axonal growth by
stimulating actin polymerization and microtubule
assembly. DOCK proteins are divided into four classes
(A-D) based on sequence similarity and domain
architecture; class B includes Dock3 and 4. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock3, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class B DOCKs also contain an SH3 domain at the
N-terminal region and a PxxP motif at the C-terminus.
Length = 392
Score = 67.7 bits (165), Expect = 2e-11
Identities = 70/243 (28%), Positives = 104/243 (42%), Gaps = 23/243 (9%)
Query: 1692 EKSRDYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYKEPT 1750
E DY+ LS I K+ AY Q +R+ +FRVGFYG KF L N+E++ +
Sbjct: 88 ESLYDYQSLSWIR-KMEAAYYDNIMEQ-QRLEPEFFRVGFYGRKFPFFLRNKEYVCRGHD 145
Query: 1751 LTKLPEIFSRLENFYAERFG-VNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEK 1809
+ RLE F + ++ N D L D Y+QI V P +N +
Sbjct: 146 -------YERLEAFQQRMLSEFPQAIAMQHPNHPDDGILQCDAQYLQIYAVTPIPDNMDV 198
Query: 1810 RY------RETHFEQNFNIKTFMYATPFTTTGK-AHGELHEQYKRKTILTTATHFPYVKT 1862
R F + N++ F Y PF K E + +T LT P +
Sbjct: 199 LQMDRVPDRIKSFYRVNNVRKFRYDRPFHKGPKDKENEFKSLWIERTTLTLTHSLPGISR 258
Query: 1863 RIQVVDRKQIILTPIEVAIEDIQKKTQELSNSI-----RQEPPDPKILQMVLQGCIGTTV 1917
+V R+ + ++P+E AI+ ++ K QEL I +Q + +L M L G I V
Sbjct: 259 WFEVERRELVEVSPLENAIQVVENKNQELRTLISQYQHKQLHGNINLLSMCLNGVIDAAV 318
Query: 1918 NQG 1920
N G
Sbjct: 319 NGG 321
>gnl|CDD|212580 cd11707, DHR2_DOCK1, Dock Homology Region 2, a GEF domain, of Class A
Dedicator of Cytokinesis 1. Dock1, also called Dock180,
is an atypical guanine nucleotide exchange factor (GEF)
that lacks the conventional Dbl homology (DH) domain. As
a GEF, it activates small GTPases by exchanging bound GDP
for free GTP. Dock1 interacts with the scaffold protein
Elmo and the resulting complex functions upstream of Rac
in many biological events including phagocytosis of
apoptotic cells, cell migration and invasion. In the
nervous system, it mediates attractive responses to
netrin-1 and thus, plays a role in axon outgrowth and
pathfinding. DOCK proteins are divided into four classes
(A-D) based on sequence similarity and domain
architecture; class A includes Dock1, 2 and 5. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock1, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class A DOCKs, like Dock1, are specific GEFs for Rac and
they contain an SH3 domain at the N-terminal region and a
PxxP motif at the C-terminus.
Length = 400
Score = 58.5 bits (141), Expect = 2e-08
Identities = 63/249 (25%), Positives = 104/249 (41%), Gaps = 22/249 (8%)
Query: 1696 DYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYKEPTLTKL 1754
DY++LS + K Y + ++ R YF VG+YG F L N+ FIY+
Sbjct: 97 DYEQLSELLKKQAQFYENIVKV--IRPKPDYFAVGYYGQGFPTFLRNKMFIYRGKE---- 150
Query: 1755 PEIFSRLENFYAERFG-VNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRE 1813
+ R E+F A N +K ++P + YIQ V+P E K +
Sbjct: 151 ---YERREDFEARLLTQFPNAEKMKTTSPPGDDIKNSSGQYIQCFTVKPLLELPPKFQNK 207
Query: 1814 THFEQ--NF----NIKTFMYATPFTTTGK-AHGELHEQYKRKTILTTATHFPYVKTRIQV 1866
EQ +F ++ F Y+ P K E + +T TA P + +V
Sbjct: 208 PVSEQIVSFYRVNEVQRFQYSRPVRKGEKDPDNEFANMWIERTTYVTAYKLPGILRWFEV 267
Query: 1867 VDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKI----LQMVLQGCIGTTVNQGPM 1922
+ ++P+E AIE +Q ++++N ++Q DP + L M+L G + V G
Sbjct: 268 KSVFMVEISPLENAIETMQLTNEKINNMVQQHLNDPNLPINPLSMLLNGIVDPAVMGGFA 327
Query: 1923 EMAVVFLSD 1931
F ++
Sbjct: 328 NYEKAFFTE 336
>gnl|CDD|212579 cd11706, DHR2_DOCK2, Dock Homology Region 2, a GEF domain, of Class A
Dedicator of Cytokinesis 2. Dock2 is a hematopoietic
cell-specific, class A DOCK and is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates small GTPases by exchanging bound GDP for free
GTP. It plays an important role in lymphocyte migration
and activation, T-cell differentiation, neutrophil
chemotaxis, and type I interferon induction. DOCK
proteins are divided into four classes (A-D) based on
sequence similarity and domain architecture; class A
includes Dock1, 2 and 5. All DOCKs contain two homology
domains: the DHR-1 (Dock homology region-1), also called
CZH1 (CED-5, Dock180, and MBC-zizimin homology 1), and
DHR-2 (also called CZH2 or Docker). The DHR-1 domain
binds phosphatidylinositol-3,4,5-triphosphate. This
alignment model represents the DHR-2 domain of Dock2,
which contains the catalytic GEF activity for Rac and/or
Cdc42. Class A DOCKs, like Dock2, are specific GEFs for
Rac and they contain an SH3 domain at the N-terminal
region and a PxxP motif at the C-terminus.
Length = 421
Score = 58.1 bits (140), Expect = 3e-08
Identities = 58/240 (24%), Positives = 95/240 (39%), Gaps = 26/240 (10%)
Query: 1696 DYKKLSNIHSKLHDAYVKLYQIQGKRVFGTYFRVGFYGMKFGD-LNNEEFIYKEPTLTKL 1754
DY+ LS + Y + +I R YF VG+YG F L N+ FIY+ +
Sbjct: 115 DYELLSQNLIQQAKFYESIMKIL--RPKPDYFAVGYYGQGFPSFLRNKVFIYRGKEYERR 172
Query: 1755 PEIFSRLENFY--AERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYR 1812
+ +L + + AE+ S P D + P YIQ V+P E + R +
Sbjct: 173 EDFQMQLMSQFPNAEKLNTT-------SAPGDDIKNSP-GQYIQCFTVQPVLEEH-PRLK 223
Query: 1813 E-------THFEQNFNIKTFMYATPFTT-TGKAHGELHEQYKRKTILTTATHFPYVKTRI 1864
+F ++ ++ F Y+ P E + +T TA P +
Sbjct: 224 NKPVPDQIINFYKSNYVQRFHYSRPVRKGPVDPENEFASMWIERTTFVTAYKLPGILRWF 283
Query: 1865 QVVDRKQIILTPIEVAIEDIQKKTQELSNSIRQEPPDPKI----LQMVLQGCIGTTVNQG 1920
+V Q ++P+E AIE + +++ I Q D + L M+L G + V G
Sbjct: 284 EVTHMSQTTISPLENAIETMSTTNEKILMMINQYQSDESLPINPLSMLLNGIVDPAVMGG 343
>gnl|CDD|212581 cd11708, DHR2_DOCK5, Dock Homology Region 2, a GEF domain, of Class A
Dedicator of Cytokinesis 5. Dock5 is an atypical guanine
nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates small GTPases by exchanging bound GDP for free
GTP. It functions upstream of Rac1 to regulate osteoclast
function. DOCK proteins are divided into four classes
(A-D) based on sequence similarity and domain
architecture; class A includes Dock1, 2 and 5. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock5, which
contains the catalytic GEF activity for Rac and/or Cdc42.
Class A DOCKs, like Dock5, are specific GEFs for Rac and
they contain an SH3 domain at the N-terminal region and a
PxxP motif at the C-terminus.
Length = 400
Score = 56.1 bits (135), Expect = 1e-07
Identities = 83/342 (24%), Positives = 132/342 (38%), Gaps = 58/342 (16%)
Query: 1664 LEHAASSFYTAG-MYETVNNVYKVIFPIVE-KSRDYKKLSNIHSKLHDAYVKLYQIQGKR 1721
L SF+ G M+E + K + + E + DY+ L N+ K Y + ++ R
Sbjct: 63 LYQEIISFFDKGKMWEKAIELSKELADMYENQVFDYEGLGNLLKKQAQFYENI--MKAMR 120
Query: 1722 VFGTYFRVGFYGMKFGD-LNNEEFIYKEPTLTKLPEIFSRLENFYAERFGVNNIMIIKDS 1780
YF VG+YG F L N+ FIY+ +L + +L + N + S
Sbjct: 121 PQPEYFAVGYYGQGFPSFLRNKIFIYRGKEYERLEDFSLKLLTQFP-----NAEKMTSTS 175
Query: 1781 NPVDTMSLDPDIAYIQITYVEPYFENYEKRYRETHF-EQNFN------IKTFMYATPFTT 1833
P D + Y+Q V+P N Y++ EQ N ++ F Y+ PF
Sbjct: 176 PPGDEIKSSTK-QYVQCFTVKPVM-NLPSHYKDKPVPEQILNYYRANEVQQFQYSRPFRK 233
Query: 1834 TGK-AHGELHEQYKRKTILTTATHFPYVKTRIQVVDRKQIILTPIEVAIEDIQKKTQELS 1892
K E + +T TTA FP + +V ++P+E AIE ++ +++S
Sbjct: 234 GEKDPDNEFATMWIERTTFTTAYRFPGILKWFEVKQISTEEISPLENAIETMELTNEKIS 293
Query: 1893 NSIRQEPPDPKI----LQMVLQGCIGTTVNQGPMEMAVVFLSD----------------- 1931
N ++Q D + L M+L G + V G F ++
Sbjct: 294 NLVQQHAWDRSLPVHPLSMLLNGIVDPAVMGGFSNYEKAFFTEKYLQEHPEDQEKIELLK 353
Query: 1932 --------LLD------GEKSPTKLQ---NKLRLCFKDFSKK 1956
LL GEK +L+ +L CFKD K
Sbjct: 354 QLIALQMPLLAEGIRIHGEKLTEQLKPLHERLVSCFKDLRAK 395
>gnl|CDD|176077 cd08695, C2_Dock-B, C2 domains found in Dedicator Of CytoKinesis
(Dock) class B proteins. Dock-B is one of 4 classes of
Dock family proteins. The members here include:
Dock3/MOCA (modifier of cell adhesion) and Dock4. Most
of these members have been shown to be GEFs specific for
Rac, although Dock4 has also been shown to interact
indirectly with the Ras family GTPase Rap1, probably
through Rap regulatory proteins. In addition to the C2
domain (AKA Dock homology region (DHR)-1, CED-5,
Dock180, MBC-zizimin homology (CZH) 1) and the DHR-2
(AKA CZH2, or Docker), which all Dock180-related
proteins have, Dock-B members contain a SH3 domain
upstream of the C2 domain and a proline-rich region
downstream. DHR-2 has the catalytic activity for Rac
and/or Cdc42, but is structurally unrelated to the DH
domain. The C2/DHR-1 domains of Dock180 and Dock4 have
been shown to bind phosphatidylinositol-3, 4,
5-triphosphate (PtdIns(3,4,5)P3). The C2 domain was
first identified in PKC. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions.
Length = 189
Score = 40.4 bits (95), Expect = 0.003
Identities = 33/128 (25%), Positives = 62/128 (48%), Gaps = 11/128 (8%)
Query: 541 RNLLFVYPKEINF-TGRTGSARNLTVKVQLMY--GETPESALPAIFGKSSCPEFTTEAYT 597
RN L++ + F G +A+N+ V + ++ G+ + + G+ C E+ +
Sbjct: 2 RNDLYLTLERGEFEKGGKSTAKNIEVTMVVLDADGQVLKDCISLGSGEPPCSEY----RS 57
Query: 598 SVIYHNKCPYVSDEIKIQLPPTLEDKHHLLFTFYHISCQKKLEQNTVETPVGYTWLPLLK 657
V+YHN P ++ IK+ +P HL F F H S + K E+ G++++PL++
Sbjct: 58 FVLYHNNSPRWNETIKLPIPIDKFRGSHLRFEFRHCSTKDKGEKKL----FGFSFVPLMR 113
Query: 658 DGQLQLND 665
+ L D
Sbjct: 114 EDGTTLPD 121
>gnl|CDD|176076 cd08694, C2_Dock-A, C2 domains found in Dedicator Of CytoKinesis
(Dock) class A proteins. Dock-A is one of 4 classes of
Dock family proteins. The members here include:
Dock180/Dock1, Dock2, and Dock5. Most of these members
have been shown to be GEFs specific for Rac. Dock5 has
not been well characterized to date, but most likely
also is a GEF specific for Rac. In addition to the C2
domain (AKA Dock homology region (DHR)-1, CED-5,
Dock180, MBC-zizimin homology (CZH) 1) and the DHR-2
(AKA CZH2, or Docker), which all Dock180-related
proteins have, Dock-A members contain a proline-rich
region and a SH3 domain upstream of the C2 domain. DHR-2
has the catalytic activity for Rac and/or Cdc42, but is
structurally unrelated to the DH domain. The C2/DHR-1
domains of Dock180 and Dock4 have been shown to bind
phosphatidylinositol-3, 4, 5-triphosphate
(PtdIns(3,4,5)P3). The C2 domain was first identified in
PKC. C2 domains fold into an 8-standed beta-sandwich
that can adopt 2 structural arrangements: Type I and
Type II, distinguished by a circular permutation
involving their N- and C-terminal beta strands. Many C2
domains are Ca2+-dependent membrane-targeting modules
that bind a wide variety of substances including bind
phospholipids, inositol polyphosphates, and
intracellular proteins. Most C2 domain proteins are
either signal transduction enzymes that contain a single
C2 domain, such as protein kinase C, or membrane
trafficking proteins which contain at least two C2
domains, such as synaptotagmin 1. However, there are a
few exceptions to this including RIM isoforms and some
splice variants of piccolo/aczonin and intersectin which
only have a single C2 domain. C2 domains with a calcium
binding region have negatively charged residues,
primarily aspartates, that serve as ligands for calcium
ions.
Length = 196
Score = 37.8 bits (88), Expect = 0.026
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 7/73 (9%)
Query: 596 YTSVIY-HNKCPYVSDEIKIQLPPTLEDKH--HLLFTFYHISCQKKLEQNTVETPVGYTW 652
Y SVIY P + K+ +P +ED HL FTF H S + +++ E P ++
Sbjct: 55 YKSVIYYQVDKPKWFETFKVAIP--IEDFKSSHLRFTFKHRSSNEAKDKS--EKPFALSF 110
Query: 653 LPLLKDGQLQLND 665
+ L+++ L D
Sbjct: 111 VKLMQENGTTLTD 123
>gnl|CDD|173932 cd08173, Gro1PDH, Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH)
catalyzes the reversible conversion between
dihydroxyacetone phosphate and glycerol-1-phosphate using
either NADH or NADPH as a coenzyme.
Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC
1.1.1.261) plays an important role in the formation of
the enantiomeric configuration of the glycerophosphate
backbone (sn-glycerol-1-phosphate) of archaeal ether
lipids. It catalyzes the reversible conversion between
dihydroxyacetone phosphate and glycerol-1-phosphate using
either NADH or NADPH as a coenzyme. The activity is
zinc-dependent. One characteristic feature of archaea is
that their cellular membrane has an ether linkage between
the glycerol backbone and the hydrocarbon residues. The
polar lipids of the members of Archaea consist of di- and
tetraethers of glycerol with isoprenoid alcohols bound at
the sn-2 and sn-3 positions of the glycerol moiety. The
archaeal polar lipids have the enantiomeric configuration
of a glycerophosphate backbone [sn- glycerol-1-phosphate
(G-1-P)] that is the mirror image structure of the
bacterial or eukaryal counterpart [sn-glycerol-
3-phosphate (G-3-P)]. The absolute stereochemistry of the
glycerol moiety in all archaeal polar lipids is opposite
to that of glycerol ester lipids in bacteria and eukarya.
This protein family is only found in Archaea.
Length = 339
Score = 33.4 bits (77), Expect = 1.1
Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 4/32 (12%)
Query: 1174 SRIINPTSEES----VESGLNQSVAMAIAGTS 1201
+ I P EES V++ ++ VAM+IAG+S
Sbjct: 203 ADEIKPGLEESVRVVVKALISSGVAMSIAGSS 234
>gnl|CDD|216547 pfam01518, PolyG_pol, Sigma NS protein. This viral protein has a
poly(C)-dependent poly(G) polymerase activity.
Length = 366
Score = 32.5 bits (74), Expect = 2.1
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 218 QDDEPVEKRCIPNLPCEPLGHRILIK------CLQLKLELD 252
D R I LPCE R+++K +QLKLELD
Sbjct: 226 GDQAEDSSRSINELPCEETRERMVLKTMLVLNAMQLKLELD 266
>gnl|CDD|177093 CHL00194, ycf39, Ycf39; Provisional.
Length = 317
Score = 31.9 bits (73), Expect = 3.0
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 11/70 (15%)
Query: 1756 EIFSRLENFYAERFGVNNIMIIKDSNPVDTMSLDPDIAYIQITYVEPYFENYEKRYRETH 1815
EI + NF + + I I + +SL+ Y + YFE KR ++ +
Sbjct: 259 EILNTSNNFSSSMAELYKIFKIDPNE---LISLE--------DYFQEYFERILKRLKDIN 307
Query: 1816 FEQNFNIKTF 1825
+EQ K
Sbjct: 308 YEQVQKQKDL 317
>gnl|CDD|225862 COG3325, ChiA, Chitinase [Carbohydrate transport and metabolism].
Length = 441
Score = 31.6 bits (72), Expect = 4.1
Identities = 18/62 (29%), Positives = 23/62 (37%), Gaps = 2/62 (3%)
Query: 426 NSSDKRVSWNLDDLDSFRPVTLTVSSFFKQESDKLRDEDLYKFLQDLKKPCSLLKKLKSI 485
NS K + + D + V SD L+ + L DLK LK L SI
Sbjct: 76 NSDGKSIESWVADEAALYGVPNIEGVELDPWSDPLKG--HFGALFDLKATYPDLKTLISI 133
Query: 486 PG 487
G
Sbjct: 134 GG 135
>gnl|CDD|107309 cd06314, PBP1_tmGBP, Periplasmic sugar-binding domain of Thermotoga
maritima glucose-binding protein (tmGBP) and its close
homologs. Periplasmic sugar-binding domain of Thermotoga
maritima glucose-binding protein (tmGBP) and its close
homologs from other bacteria. They are a member of the
type I periplasmic binding protein superfamily which
consists of two domains connected by a three-stranded
hinge. TmGBP is specific for glucose and its binding
pocket is buried at the interface of the two domains.
TmGBP also exhibits high thermostability and the highest
structural similarity to E. coli glucose binding protein
(ecGBP).
Length = 271
Score = 31.2 bits (71), Expect = 5.3
Identities = 19/41 (46%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 1901 DPKILQMVLQGCIGTTVNQGPMEM---AVVFLSDLLDGEKS 1938
DP LQ V +G I TV Q P +M +V L+ LL G+KS
Sbjct: 215 DPDTLQGVKEGTIQGTVVQRPYQMGYLSVTVLAALLKGDKS 255
>gnl|CDD|180471 PRK06209, PRK06209, glutamate-1-semialdehyde 2,1-aminomutase;
Provisional.
Length = 431
Score = 31.6 bits (72), Expect = 5.6
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 703 VVLSAASSIHPQDTHIHEFLSICDK 727
V+L A++ PQD +HE +C +
Sbjct: 191 VILEPATADEPQDGFLHEVRRLCHE 215
>gnl|CDD|179139 PRK00843, egsA, NAD(P)-dependent glycerol-1-phosphate dehydrogenase;
Reviewed.
Length = 350
Score = 31.0 bits (71), Expect = 6.9
Identities = 14/30 (46%), Positives = 20/30 (66%), Gaps = 4/30 (13%)
Query: 1176 IINPTSEES----VESGLNQSVAMAIAGTS 1201
II P EES V++ ++ VAM+IAG+S
Sbjct: 214 IIKPGLEESARLVVKALISSGVAMSIAGSS 243
>gnl|CDD|217141 pfam02611, CDH, CDP-diacylglycerol pyrophosphatase. This is a
family of CDP-diacylglycerol pyrophosphatases,
EC:3.6.1.26. This enzyme catalyzes the reaction
CDP-diacylglycerol + H2O <=> CMP + phosphatidate.
Length = 222
Score = 30.4 bits (69), Expect = 7.7
Identities = 9/34 (26%), Positives = 12/34 (35%), Gaps = 5/34 (14%)
Query: 632 HISC-----QKKLEQNTVETPVGYTWLPLLKDGQ 660
HISC + L+ N + LP G
Sbjct: 113 HISCLRPDVRAALDANAAAISSRWKPLPGGLQGH 146
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 0.135 0.398
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 100,205,746
Number of extensions: 9852689
Number of successful extensions: 8004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 7945
Number of HSP's successfully gapped: 42
Length of query: 2010
Length of database: 10,937,602
Length adjustment: 112
Effective length of query: 1898
Effective length of database: 5,969,954
Effective search space: 11330972692
Effective search space used: 11330972692
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: 67 (29.6 bits)