RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8415
(1561 letters)
>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 = 556 bits (1435), Expect = 0.0
Identities = 240/398 (60%), Positives = 279/398 (70%), Gaps = 42/398 (10%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPLINDPMCQPNGAPEWYRKE 1023
EMYLRYIYKLHDLH A+N+TEA FTL LYA+ LSW SS PL D PEW RKE
Sbjct: 1 EMYLRYIYKLHDLHLQAENYTEAAFTLLLYAELLSW-SSDPLPADL--HHPSQPEWQRKE 57
Query: 1024 QLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQLRP 1083
LY +I+ YFD+GKCWEKGIPLC+ELA+LYE +DY KLS+IL+ +A F DNIL QLRP
Sbjct: 58 ALYLKILQYFDRGKCWEKGIPLCRELAELYESL-YDYAKLSHILRMEASFYDNILTQLRP 116
Query: 1084 EPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPSHTI 1143
EPEYFRVGFYG FPLF+RNK FVYRGL YER+ AFTQRLQ+EFP A+IL+KN+PP I
Sbjct: 117 EPEYFRVGFYGKGFPLFLRNKQFVYRGLDYERIGAFTQRLQSEFPQAHILTKNTPPDDAI 176
Query: 1144 QQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGPIDK 1203
Q+D QYIQICNVKP+PER P VPDK+ +Y+VNDVR FQ DRP+HKGPIDK
Sbjct: 177 LQADGQYIQICNVKPVPERRPVLQMV---GVPDKVRSFYRVNDVRKFQYDRPIHKGPIDK 233
Query: 1204 DNEFKSLWLERTIMTISSPLPGILRWFEVVESNVD-----------LENPG--------- 1243
DNEFKSLW+ERT + LPGILRWFEVV V+ +EN
Sbjct: 234 DNEFKSLWIERTTLVTEHSLPGILRWFEVVSREVEEIPPVENACETVENKNQELRSLISQ 293
Query: 1244 ---------------LQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHILILE 1288
LQG IDA V GGIAKYQ+AFFTPEF +P+ +I RL LILE
Sbjct: 294 YQADPTRNINPFSMRLQGVIDAAVNGGIAKYQEAFFTPEFILSHPEDAEHIARLRELILE 353
Query: 1289 QVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
QV +LE GL +HG+LAPP V+PLHKRL ERF ++QS+
Sbjct: 354 QVQILEAGLALHGKLAPPEVRPLHKRLVERFTQMKQSL 391
>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 = 425 bits (1096), Expect = e-136
Identities = 182/402 (45%), Positives = 241/402 (59%), Gaps = 41/402 (10%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPLIN--DPMCQPNGAPEWYR 1021
EMY+RY+YKL DLH DN+TEA +TL+L+A+ L W S PL P
Sbjct: 1 EMYIRYLYKLCDLHLECDNYTEAAYTLQLHAELLKW-SDEPLPTLLRSRRYPEAQTHRQL 59
Query: 1022 KEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQL 1081
KE LYY+II YFDKGK WE I LCKELA+ YE FDY +LS +L+ A F DNI+ L
Sbjct: 60 KEALYYDIIDYFDKGKMWECAISLCKELAEQYENETFDYLQLSELLKRMATFYDNIMKTL 119
Query: 1082 RPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPSH 1141
RPEPEYFRVG+YG FP F+RNKVF+YRG YER+ F+ RL +FP+A +++ +PP
Sbjct: 120 RPEPEYFRVGYYGQGFPSFLRNKVFIYRGKEYERLSDFSARLLNQFPNAELMNTLTPPGD 179
Query: 1142 TIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGPI 1201
I++S QY+QI V P+ + P PV D+I YY+VN+V+ F RP +G
Sbjct: 180 EIKESPGQYLQINKVDPVMDERPRFKG---KPVSDQILNYYKVNEVQRFTFSRPFRRGTK 236
Query: 1202 DKDNEFKSLWLERTIMTISSPLPGILRWFEVVESNVD----LENP--------------- 1242
D DNEF ++WLERT +T + LPGILRWFEVV ++ LEN
Sbjct: 237 DPDNEFANMWLERTTLTTAYKLPGILRWFEVVSTSTVEISPLENAIETMEDTNKKIRDLI 296
Query: 1243 ----------------GLQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHILI 1286
L G +DA VMGGIA Y++AFFT E+ +P+ I RL LI
Sbjct: 297 LQHQSDPTLPINPLSMLLNGIVDAAVMGGIANYEKAFFTEEYLDEHPEDQELIERLKDLI 356
Query: 1287 LEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSIRK 1328
EQ+ +LE GL +H Q AP ++PLH+R++E FA +++ + +
Sbjct: 357 AEQIPLLEAGLKIHKQKAPESLRPLHERMEECFAKMKEHVEE 398
>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 = 364 bits (936), Expect = e-113
Identities = 182/422 (43%), Positives = 248/422 (58%), Gaps = 44/422 (10%)
Query: 945 RMSCTVNLLNFYKNEINRKEMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTS--- 1001
RMSCTVNLLNFYK +INR+ MY+RY+YKL DLH +N+TEA +TL L+ L W+
Sbjct: 1 RMSCTVNLLNFYK-DINREAMYIRYLYKLRDLHLDCENYTEAAYTLLLHTRLLKWSDEQC 59
Query: 1002 SAPLINDPMCQPNGAPEWYRKEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYK 1061
++ ++ Q + + KE LY II YFDKGK WE+ I LCKELA+ YE +FDY+
Sbjct: 60 ASQVMQ--TGQQHPQTQRQLKETLYETIIGYFDKGKMWEEAISLCKELAEQYEMEIFDYE 117
Query: 1062 KLSNILQTQAQFCDNILNQLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQ 1121
LS L QA+F ++I+ LRP+P+YF VG+YG FP F+RNKVF+YRG YER E F
Sbjct: 118 LLSQNLIQQAKFYESIMKILRPKPDYFAVGYYGQGFPSFLRNKVFIYRGKEYERREDFQM 177
Query: 1122 RLQTEFPSANILSKNSPPSHTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQY 1181
+L ++FP+A L+ S P I+ S QYIQ V+P+ E P N PVPD+I +
Sbjct: 178 QLMSQFPNAEKLNTTSAPGDDIKNSPGQYIQCFTVQPVLEEHPRLKN---KPVPDQIINF 234
Query: 1182 YQVNDVRTFQLDRPMHKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVVESNVD--- 1238
Y+ N V+ F RP+ KGP+D +NEF S+W+ERT + LPGILRWFEV +
Sbjct: 235 YKSNYVQRFHYSRPVRKGPVDPENEFASMWIERTTFVTAYKLPGILRWFEVTHMSQTTIS 294
Query: 1239 -LENP-------------------------------GLQGTIDANVMGGIAKYQQAFFTP 1266
LEN L G +D VMGG AKY++AFFT
Sbjct: 295 PLENAIETMSTTNEKILMMINQYQSDESLPINPLSMLLNGIVDPAVMGGFAKYEKAFFTE 354
Query: 1267 EFARGYPQYIPYINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
E+ R +P+ + RL LI Q+ +L G+ +HG+ ++P H+R++E F L+ +
Sbjct: 355 EYVRDHPEDQDKLTRLKDLIAWQIPLLGAGIKIHGKRVTDDLRPFHERMEECFKQLKMKV 414
Query: 1327 RK 1328
K
Sbjct: 415 EK 416
>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 = 354 bits (910), Expect = e-110
Identities = 141/400 (35%), Positives = 200/400 (50%), Gaps = 45/400 (11%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSA--PLINDPMCQPNGAPEWYR 1021
E+Y+RY++KL DLH N+ EA L L+AD +W A P + + + P + R
Sbjct: 1 ELYIRYLHKLADLHEERGNYVEAALCLLLHADLYAWDLKALVPALAESLSFPEQT-SFER 59
Query: 1022 KEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQL 1081
KE LY + I FDKGK WE I L KEL YE FDY KLS + + A+ + I +
Sbjct: 60 KEALYKKAIDLFDKGKAWEFAIALYKELIPQYENN-FDYAKLSEVHRKIAKLYEKIAEKD 118
Query: 1082 RPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPSH 1141
R P YFRVGFYG FP +R K F+YRG +ER+ F +RL++ +P A I+ + P
Sbjct: 119 RLFPTYFRVGFYGKGFPESLRGKEFIYRGPEFERLGDFCERLKSLYPGAEIIQSSEEPDD 178
Query: 1142 TIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGPI 1201
I S+ QYIQI +V+P + ++ + Q+Y+ N++ TF +RP KG
Sbjct: 179 EILDSEGQYIQITSVEPYFD-----DEDLVSRAAPGVRQFYRNNNINTFVYERPFTKGGK 233
Query: 1202 DKDNEFKSLWLERTIMTISSPLPGILRWFEVVESNVD----LEN---------------- 1241
NE W ERTI+T P ILR EVV +EN
Sbjct: 234 KSQNEITDQWKERTILTTEESFPTILRRSEVVSIEEIELSPIENAIEDIEKKTEELRSLI 293
Query: 1242 ---------------PGLQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHILI 1286
LQGT+DA V GG Y +AF + E+ YP+ + +L
Sbjct: 294 NKYRSGDSPNVNPLQMLLQGTVDAAVNGGPVAYAEAFLSEEYLSNYPE-AEKVKKLKEAF 352
Query: 1287 LEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
E +++L+ GL +H +L PP + PLH+ L+E F L + +
Sbjct: 353 EEFLEILKRGLALHAKLCPPEMAPLHEELEEGFEKLFKEL 392
>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 = 342 bits (878), Expect = e-105
Identities = 182/399 (45%), Positives = 242/399 (60%), Gaps = 43/399 (10%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPLINDPMCQPNGAPEWYRKE 1023
EMY+RYI+KL D+H A+N+TEA FTL LY + L W PL + + P+ + EW RKE
Sbjct: 1 EMYIRYIHKLCDMHLQAENYTEAAFTLLLYCELLQW-EDRPL-REFLHYPSQS-EWQRKE 57
Query: 1024 QLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQLRP 1083
L +II YF+KGK WE GIPLC+ELA YE L+DY+ LS I + +A + DNI+ Q R
Sbjct: 58 GLCRKIIHYFNKGKSWEFGIPLCRELAFQYES-LYDYQSLSWIRKMEAAYYDNIMEQQRL 116
Query: 1084 EPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPSHTI 1143
EPE+FRVGFYG FP F+RNK +V RG YER+EAF QR+ +EFP A + + P I
Sbjct: 117 EPEFFRVGFYGRKFPFFLRNKEYVCRGHDYERLEAFQQRMLSEFPQAIAMQHPNHPDDGI 176
Query: 1144 QQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGPIDK 1203
Q D QY+QI V P+P+ + VPD+I +Y+VN+VR F+ DRP HKGP DK
Sbjct: 177 LQCDAQYLQIYAVTPIPDNMDVL---QMDRVPDRIKSFYRVNNVRKFRYDRPFHKGPKDK 233
Query: 1204 DNEFKSLWLERTIMTISSPLPGILRWFEV------------------------------- 1232
+NEFKSLW+ERT +T++ LPGI RWFEV
Sbjct: 234 ENEFKSLWIERTTLTLTHSLPGISRWFEVERRELVEVSPLENAIQVVENKNQELRTLISQ 293
Query: 1233 -----VESNVDLENPGLQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHILIL 1287
+ N++L + L G IDA V GGIA+YQ+AFF ++ +P I +L L+
Sbjct: 294 YQHKQLHGNINLLSMCLNGVIDAAVNGGIARYQEAFFDKDYISKHPGDAEKITQLKELMQ 353
Query: 1288 EQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
EQV VL GL VH + P ++PLHK+L ++F +R S+
Sbjct: 354 EQVHVLGVGLAVHEKFVHPEMRPLHKKLIDQFQMMRSSL 392
>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 = 331 bits (849), Expect = e-101
Identities = 170/403 (42%), Positives = 239/403 (59%), Gaps = 43/403 (10%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPLINDPMCQPNG---APEWY 1020
EMY+RY+YKL DLH+ DN+TEA +TL L+A L W+ A + + Q +G +
Sbjct: 1 EMYIRYLYKLCDLHKECDNYTEAAYTLLLHAKLLKWSEEACAAH--LTQRDGYQATTQGQ 58
Query: 1021 RKEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQ 1080
K+QLY EII YFDKGK WE+ I L KELA+ YE +FDY++LS +L+ QAQF +NI+
Sbjct: 59 LKDQLYQEIIHYFDKGKMWEEAIALGKELAEQYENEMFDYEQLSELLKKQAQFYENIVKV 118
Query: 1081 LRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPS 1140
+RP+P+YF VG+YG FP F+RNK+F+YRG YER E F RL T+FP+A + SPP
Sbjct: 119 IRPKPDYFAVGYYGQGFPTFLRNKMFIYRGKEYERREDFEARLLTQFPNAEKMKTTSPPG 178
Query: 1141 HTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGP 1200
I+ S QYIQ VKPL E P N PV ++I +Y+VN+V+ FQ RP+ KG
Sbjct: 179 DDIKNSSGQYIQCFTVKPLLELPPKFQN---KPVSEQIVSFYRVNEVQRFQYSRPVRKGE 235
Query: 1201 IDKDNEFKSLWLERTIMTISSPLPGILRWFEV----------VESNVD------------ 1238
D DNEF ++W+ERT + LPGILRWFEV +E+ ++
Sbjct: 236 KDPDNEFANMWIERTTYVTAYKLPGILRWFEVKSVFMVEISPLENAIETMQLTNEKINNM 295
Query: 1239 ----LENPGL---------QGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHIL 1285
L +P L G +D VMGG A Y++AFFT ++ + +P+ I +L L
Sbjct: 296 VQQHLNDPNLPINPLSMLLNGIVDPAVMGGFANYEKAFFTEKYMQEHPEDHEKIEKLKDL 355
Query: 1286 ILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSIRK 1328
I Q+ L G+ +HG+ ++P H+R++ F L++ + K
Sbjct: 356 IAWQIPFLAEGIRIHGEKVTEALRPFHERMEACFRQLKEKVEK 398
>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 = 328 bits (843), Expect = e-101
Identities = 180/401 (44%), Positives = 238/401 (59%), Gaps = 48/401 (11%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPL---INDPMCQPNGAPEWY 1020
EMY+RYI+KL+DLH A NFTEA +TL LY + L W S PL ++ PM EW
Sbjct: 1 EMYIRYIHKLYDLHLKAQNFTEAAYTLLLYDELLEW-SDRPLREFLSYPM-----QTEWQ 54
Query: 1021 RKEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQ 1080
RKE L+ II FD+GKCWE GI LC++LA+ YE +DY+ LS + +A D I++Q
Sbjct: 55 RKEYLHLTIIQNFDRGKCWENGIILCRKLAEQYES-YYDYRNLSKMRMMEASLYDKIMDQ 113
Query: 1081 LRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPPS 1140
R EPE+FRVGFYG FP F+RNK FV RG YER+EAF QR+ EFP A + + P
Sbjct: 114 QRLEPEFFRVGFYGKKFPFFLRNKEFVCRGHDYERLEAFQQRMLNEFPHAIAMQHANQPD 173
Query: 1141 HTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKGP 1200
TI Q++ QY+QI V P+PE VPD I +Y+VN + F+ DRP HKG
Sbjct: 174 ETIFQAEAQYLQIYAVTPIPESQEVLQR---DGVPDNIKSFYKVNHIWRFRYDRPFHKGT 230
Query: 1201 IDKDNEFKSLWLERTIMTISSPLPGILRWFEV----------VESNVD-LENPGLQ---- 1245
DK+NEFKSLW+ERT +T+ LPGI RWFEV +E+ ++ LEN Q
Sbjct: 231 KDKENEFKSLWVERTTLTLVQSLPGISRWFEVEKREVVEMSPLENAIEVLENKNQQLRTL 290
Query: 1246 --------------------GTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHIL 1285
G IDA V GG+++YQ+AFF E+ +P+ I RL L
Sbjct: 291 ISQCQTRQMQNINPLTMCLNGVIDAAVNGGVSRYQEAFFVKEYILNHPEDGDKITRLREL 350
Query: 1286 ILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
+LEQ +LE GL VH + P ++PLHK+L ++F ++ S+
Sbjct: 351 MLEQAQILEFGLAVHEKFVPQDMRPLHKKLVDQFFVMKSSL 391
>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 = 318 bits (816), Expect = 5e-97
Identities = 168/404 (41%), Positives = 234/404 (57%), Gaps = 45/404 (11%)
Query: 964 EMYLRYIYKLHDLHRPADNFTEAGFTLKLYADSLSWTSSAPLINDPMCQPNGAPEWYR-- 1021
++Y+RY+YKL DLH +N+TEA +TL L+A+ L W S P + P + Y
Sbjct: 1 DIYIRYLYKLRDLHLDCENYTEAAYTLLLHAELLQW-SEKPCV--PHLLQRDSYYVYTQQ 57
Query: 1022 --KEQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILN 1079
KE+LY EIIS+FDKGK WEK I L KELAD+YE ++FDY+ L N+L+ QAQF +NI+
Sbjct: 58 ELKERLYQEIISFFDKGKMWEKAIELSKELADMYENQVFDYEGLGNLLKKQAQFYENIMK 117
Query: 1080 QLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPSANILSKNSPP 1139
+RP+PEYF VG+YG FP F+RNK+F+YRG YER+E F+ +L T+FP+A ++ SPP
Sbjct: 118 AMRPQPEYFAVGYYGQGFPSFLRNKIFIYRGKEYERLEDFSLKLLTQFPNAEKMTSTSPP 177
Query: 1140 SHTIQQSDVQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPMHKG 1199
I+ S QY+Q VKP+ + PVP++I YY+ N+V+ FQ RP KG
Sbjct: 178 GDEIKSSTKQYVQCFTVKPVMNLPS---HYKDKPVPEQILNYYRANEVQQFQYSRPFRKG 234
Query: 1200 PIDKDNEFKSLWLERTIMTISSPLPGILRWFEV----VESNVDLENP------------- 1242
D DNEF ++W+ERT T + PGIL+WFEV E LEN
Sbjct: 235 EKDPDNEFATMWIERTTFTTAYRFPGILKWFEVKQISTEEISPLENAIETMELTNEKISN 294
Query: 1243 ------------------GLQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHI 1284
L G +D VMGG + Y++AFFT ++ + +P+ I L
Sbjct: 295 LVQQHAWDRSLPVHPLSMLLNGIVDPAVMGGFSNYEKAFFTEKYLQEHPEDQEKIELLKQ 354
Query: 1285 LILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSIRK 1328
LI Q+ +L G+ +HG+ ++PLH+RL F LR + K
Sbjct: 355 LIALQMPLLAEGIRIHGEKLTEQLKPLHERLVSCFKDLRAKVEK 398
>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 = 295 bits (757), Expect = 4e-92
Identities = 109/194 (56%), Positives = 140/194 (72%), Gaps = 7/194 (3%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTVLQNCLWGASGSDTSSEYHSMIIY 244
RNDLYL LERGEFEKGGKST KNIEVT+ VLD+DG VL++C+ SG SEY S ++Y
Sbjct: 2 RNDLYLTLERGEFEKGGKSTAKNIEVTMVVLDADGQVLKDCISLGSGEPPCSEYRSFVLY 61
Query: 245 HHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKADNKKLLGFSFARLMEPSGATLQ 304
H+NSP W+E I+L +PI++++ SH+R E+RHCST+DK KKL GFSF LM G TL
Sbjct: 62 HNNSPRWNETIKLPIPIDKFRGSHLRFEFRHCSTKDK-GEKKLFGFSFVPLMREDGTTLP 120
Query: 305 DCQHELFIYRCEE-RSKLDPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACSHKESVFIR 363
D HEL++Y+C+E + LDP YLGL + ++ Q G P S ++ S KES +IR
Sbjct: 121 DGSHELYVYKCDENATFLDPALYLGLPCSKEDFQ-GCPNSP----SPLFSRSSKESFWIR 175
Query: 364 TLLCSTKLTQNVEI 377
TLLCSTKLTQNV++
Sbjct: 176 TLLCSTKLTQNVDL 189
>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 = 187 bits (477), Expect = 3e-54
Identities = 78/195 (40%), Positives = 120/195 (61%), Gaps = 2/195 (1%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTVLQNCLWGASGSDTSSEYHSMIIY 244
RNDLYL L +G+F+KG K++ KN+EVTV V + DG ++ + +G + EY S+I Y
Sbjct: 2 RNDLYLTLVQGDFDKGSKTSDKNVEVTVSVCNEDGKIIPGVISLGAGEEPIDEYKSVIYY 61
Query: 245 HHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKAD-NKKLLGFSFARLMEPSGATL 303
+ P W E ++A+PIE ++SSH+R ++H S+ + D ++K SF +LM+ +G TL
Sbjct: 62 QVDKPKWFETFKVAIPIEDFKSSHLRFTFKHRSSNEAKDKSEKPFALSFVKLMQENGTTL 121
Query: 304 QDCQHELFIYRCEERSKL-DPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACSHKESVFI 362
D +H+L +Y+ + + KL D YL L ST E +A + + S K+S I
Sbjct: 122 TDGEHDLIVYKVDAKKKLEDAKAYLSLPSTRAELEARKSSPSGSASNLGLSLSSKDSFQI 181
Query: 363 RTLLCSTKLTQNVEI 377
TL+CSTKLTQNV++
Sbjct: 182 STLVCSTKLTQNVDL 196
>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 = 160 bits (408), Expect = 3e-45
Identities = 64/194 (32%), Positives = 106/194 (54%), Gaps = 22/194 (11%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTVLQNCL-WGASGSDTSSEYHSMII 243
RNDLY+ + GE K G+NIE+TV+V D DG +++ C+ SGS+ SEY S+ +
Sbjct: 2 RNDLYVYPQSGELSKAKSK-GRNIEITVEVRDDDGDIIEPCISAPGSGSELRSEYTSV-V 59
Query: 244 YHHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKADNK--KLLGFSFARLMEPSGA 301
Y+H +P +++ I++ +P + H+ + H S++ K +K G++F LM+ GA
Sbjct: 60 YYHKNPVFNDEIKIQLPADLTPQHHLLFTFYHVSSKKKQGDKEETPFGYAFLPLMDKDGA 119
Query: 302 TLQDCQHELFIYRCEERSKLDPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACSHKESVF 361
++D H L +Y+ ++R + P YL L ST+ + S K++
Sbjct: 120 FIKDGDHTLPVYKYDKRPDVGPSGYLSLPSTLANGK-----------------SSKDTFK 162
Query: 362 IRTLLCSTKLTQNV 375
I+T LCST LTQ+
Sbjct: 163 IKTRLCSTILTQDK 176
>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 = 146 bits (371), Expect = 3e-40
Identities = 60/195 (30%), Positives = 101/195 (51%), Gaps = 23/195 (11%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTV-LQNCLWGASGSDT-SSEYHSMI 242
RNDLY+ L+ F K KS +NIEVTV++ DSDG+ C++ S +++ + Y+S +
Sbjct: 6 RNDLYVYLKSANFSKPKKSKARNIEVTVELRDSDGSSKPLKCIYPRSSNESLVTSYYSSV 65
Query: 243 IYHHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKADNKKLLGFSFARLMEPSGAT 302
+YH+ +P +++ I++ +P+ S H+ + H S ++ +K GF++ LM+ G T
Sbjct: 66 LYHNKNPVFNDEIKIQLPLPLTPSHHLLFTFYHVSAKESKKKEKPFGFAWLPLMD-DGTT 124
Query: 303 LQDCQHELFIYRCEERSKLDPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACSHKESVFI 362
+QD +H L +Y S+ P +YL L + E D K +
Sbjct: 125 IQDGEHTLPVY-----SENLPPNYLSLPPSAME---------KNVD------GKKPVFTV 164
Query: 363 RTLLCSTKLTQNVEI 377
T LCST TQ+ +
Sbjct: 165 STRLCSTVYTQDPHL 179
>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 = 142 bits (359), Expect = 1e-38
Identities = 53/198 (26%), Positives = 89/198 (44%), Gaps = 27/198 (13%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTVLQNCLW----GASGSDTSSEYHS 240
RNDLY+ + +F K KS +NI VTV++ DSDG VL+ L +SG S S
Sbjct: 3 RNDLYVYPKSLKFSKQPKSKARNIVVTVELRDSDGEVLEEGLPIIYNRSSGPSLVSSAFS 62
Query: 241 MIIYHHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKADNK-KLLGFSFARLMEPS 299
+ YH+ +P +++ +L +P++ H+ + H S + K +G++F L++
Sbjct: 63 SVSYHNKNPQFNDEFKLQLPLDLTPGHHLLFTFYHVSVKKKKKKVETPIGYAFLPLLD-K 121
Query: 300 GATLQDCQHELFIYRCEERSKLDPGHYLGLASTVQEAQAGTVPIPYKTDSAHYACSHKES 359
G ++D +H L +Y+ P YL + + K
Sbjct: 122 GGFIRDGEHTLPVYKE------LPPGYL--------------SESTSPNMKWLD-NGKPV 160
Query: 360 VFIRTLLCSTKLTQNVEI 377
+ T LCST TQ+ +
Sbjct: 161 FKVSTRLCSTVYTQDPTL 178
>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 = 126 bits (318), Expect = 4e-33
Identities = 44/181 (24%), Positives = 72/181 (39%), Gaps = 34/181 (18%)
Query: 1179 AQYYQVNDVRTFQLDRPMHKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVVE-SNV 1237
+ + N+V F D P KG K E + W RTI+T + P I + EVV V
Sbjct: 1 TYFERNNNVNRFVFDTPFTKGGK-KQGEVEEQWKRRTILTTENAFPYIKKRIEVVSKEEV 59
Query: 1238 DLE----------------------NPG--------LQGTIDANVMGGIAKYQQAFFTPE 1267
+L P LQG++D V GG KY + F + +
Sbjct: 60 ELSPIEVAIEDISKKTAELAALISQYPPNINPLQMLLQGSVDVQVNGGPLKYAEVFLSED 119
Query: 1268 FARGYPQYIPYINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSIR 1327
+A Y ++N+L + + + L +H +L P + L + L+ F L++ +
Sbjct: 120 YANPYQA--KHVNKLKKAFRDFLKICGEALELHEKLIPEDQKELQEELESGFEELKKELS 177
Query: 1328 K 1328
Sbjct: 178 P 178
>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 = 46.9 bits (112), Expect = 5e-05
Identities = 65/349 (18%), Positives = 126/349 (36%), Gaps = 82/349 (23%)
Query: 1027 YEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQLRPE-- 1084
YE++ K + +YEKR D+++L++ +T + + ++ +
Sbjct: 61 YELLGELYKL------------IIPIYEKRR-DFEQLADCYRTLHRAYEKVVEVMESGKR 107
Query: 1085 --PEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQ----TEFPSANILSKNSP 1138
Y+RV FYG +F K ++Y+ + ++RL +F S N+ K
Sbjct: 108 LLGTYYRVAFYGQAFFEEEDGKEYIYKEPKVTSLSEISERLLKLYGDKFGSENV--KLIQ 165
Query: 1139 PSHTIQQSD----VQYIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDR 1194
S + D YIQ+ +V P + L D+ ++ + +++R F +
Sbjct: 166 DSGKVNPKDLDPKYAYIQVTHVTPYFDE------KELE---DRKTEFERNHNIRRFVFET 216
Query: 1195 PM------HKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVV--------------- 1233
P ++ W RTI+T S P + + VV
Sbjct: 217 PFTLSGKARGAVEEQ-------WKRRTILTTSHSFPYVKKRIPVVQREIIELSPIEVAID 269
Query: 1234 ---------ESNVDLENPG-------LQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIP 1277
E + E LQG++ V G Y +AF P + YP
Sbjct: 270 EMQSKVKELEELISTEPVDMKKLQLRLQGSVSVQVNAGPLAYARAFLEPTTVKNYPDD-- 327
Query: 1278 YINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
+ L + + + L ++ +L + H+ L+E + + + +
Sbjct: 328 QVEDLKDVFRDFIKACGQALELNERLIKEDQREYHEVLKENYRKMVKEL 376
>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 = 45.0 bits (107), Expect = 2e-04
Identities = 43/140 (30%), Positives = 60/140 (42%), Gaps = 15/140 (10%)
Query: 1030 ISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNI---LQTQAQFCDNILNQLRPEPE 1086
F K +E + K L + E DYKKL+ I LQ + R
Sbjct: 45 AESFSKAGMYEAVNEVYKLLIPILEANR-DYKKLAEIHGKLQDAFTKIEKQQGGKRMFGT 103
Query: 1087 YFRVGFYGLSFPLF--VRNKVFVYRGLAYERMEAFTQRLQT----EFPSANI-LSKNSPP 1139
YFRVGFYG F + K F+Y+ A ++ + RL+T F + + K+S P
Sbjct: 104 YFRVGFYG---SKFGDLDGKEFIYKEPAITKLPEISHRLETFYGERFGEERVEVIKDSNP 160
Query: 1140 SHTIQ-QSDVQYIQICNVKP 1158
T + D YIQI V+P
Sbjct: 161 VDTSKLDPDKAYIQITYVEP 180
>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 = 43.5 bits (102), Expect = 7e-04
Identities = 61/295 (20%), Positives = 109/295 (36%), Gaps = 57/295 (19%)
Query: 1023 EQLYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLS----NILQTQAQFCDNIL 1078
EQL + Y K + +E + K + ++EK+ D+K+LS +I ++ + + +
Sbjct: 116 EQLEL-CVDYLWKSERYELIADVNKPVIAVFEKQR-DFKRLSELYYDIHRSYLKVAEVVN 173
Query: 1079 NQLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRL----QTEFPSANILS 1134
++ R Y+RV FYG F K ++Y+ + +QRL +F + N+
Sbjct: 174 SEKRLFGRYYRVAFYGQGFFEEEEGKEYIYKEPKLTGLSEISQRLLKLYADKFGADNV-- 231
Query: 1135 KNSPPSHTIQQSDVQ----YIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTF 1190
K S+ + ++ YIQ+ V P + D+ + +++ F
Sbjct: 232 KIIQDSNKVNPKELDPKFAYIQVTYVTPYFDEKEQE---------DRKTDFEMHHNINRF 282
Query: 1191 QLDRPMHKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVVESNVDLENP-------- 1242
+ P K + RTI+T S P + + +VV NP
Sbjct: 283 VFETPFTLSG-KKHGGVEEQCKRRTILTTSHSFPYVKKRIQVVSQTSTELNPIEVAIDEM 341
Query: 1243 -----------------------GLQGTIDANVMGGIAKYQQAFFTPEFARGYPQ 1274
LQG++ V G Y +AF A+ YP
Sbjct: 342 SKKVSELNQLCTMEEVDMIRLQLKLQGSVSVKVNAGPMAYARAFLEETNAKKYPD 396
>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 = 40.0 bits (94), Expect = 0.003
Identities = 23/100 (23%), Positives = 51/100 (51%), Gaps = 10/100 (10%)
Query: 206 KNIEVTVQVLDSDGTVLQ--NCLW-GASGSDTSSEYHSMIIYHHNSPCWSEIIRLAVPIE 262
+NI V ++ DSD + C++ G G T+S Y + +++H+ +P + + I++ +P +
Sbjct: 24 RNIAVCIEFRDSDEEDAKPLKCIYYGPGGGFTTSAY-AAVLHHNQNPEFYDEIKIELPTQ 82
Query: 263 RYQSSHIRLEYRH--CSTRDKADNKK----LLGFSFARLM 296
++ H+ + H C K K +G+++ L+
Sbjct: 83 LHEKHHLLFTFYHVSCDINKKGKKKDGVETPVGYAWLPLL 122
>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 = 40.8 bits (95), Expect = 0.005
Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 14/139 (10%)
Query: 1031 SYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQL----RPEPE 1086
+ F+ G +E + K L ++E DYKKL+ + + + I NQ R
Sbjct: 101 ASFNMGGLYEAVNEVYKILIPIHEANR-DYKKLAVVHGKLQEAFNKITNQSSGWERMFGT 159
Query: 1087 YFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRLQTEFPS-------ANILSKNSPP 1139
YFRVGFYG F + FVY+ + ++ + RL+ EF + I+ ++P
Sbjct: 160 YFRVGFYGCKFGDLDEQE-FVYKEPSITKLAEISHRLE-EFYTERFGDEVVEIIKDSNPV 217
Query: 1140 SHTIQQSDVQYIQICNVKP 1158
+ + YIQI V+P
Sbjct: 218 DKSKLDPNKAYIQITYVEP 236
>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 = 40.0 bits (93), Expect = 0.008
Identities = 42/180 (23%), Positives = 70/180 (38%), Gaps = 27/180 (15%)
Query: 1059 DYKKLSNILQTQAQFCDNILN--QLRPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERM 1116
D++KL++ + DNI+N R YFRVGFYG F + F+Y+ A ++
Sbjct: 129 DFRKLASTHDKLQKAFDNIINKGHKRMFGTYFRVGFYGSKFGDLDEQE-FIYKEPAITKL 187
Query: 1117 EAFTQRLQTEFPSA------NILSKNSPPSHTIQQSDVQYIQICNVKPLPERGPPCINPP 1170
+ RL+ + ++ ++P + + YIQI V+P +
Sbjct: 188 PEISHRLEGFYGQCFGDDVVEVIKDSTPVDKSKLDPNKAYIQITFVEPYFD--------- 238
Query: 1171 LAPVPDKIAQYYQVNDVRTFQLDRPMHKGPIDKD----NEFKSLWLERTIMTISSPLPGI 1226
D + + F L R M+ P D E + +TI+T P I
Sbjct: 239 -----DYEMKDRVTYFEKNFNLRRFMYTTPFTLDGRPRGELSEQYKRKTILTTMHAFPYI 293
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 40.5 bits (95), Expect = 0.009
Identities = 31/194 (15%), Positives = 43/194 (22%), Gaps = 16/194 (8%)
Query: 1328 KPPTESIIHSPLPPVPDQYINAGYHPVEEGEDIYSRPGDLDLGEGDGEAPCLPQRPRSAG 1387
P PP + G R A
Sbjct: 114 PDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQAA 173
Query: 1388 YGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAP-PLPPR-- 1444
P P R PS S+ +S R+S +P P P R
Sbjct: 174 L----PLSSP-EETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSA 228
Query: 1445 ----GFTPDKRSSGEPPSLHRRQDSISQRDS-SYSDNISVYEDCVVPN-TSFLFSTGS-- 1496
G + SS E ++ + + + N S S
Sbjct: 229 ADDAGASSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSS 288
Query: 1497 TSPSSPCPPPLPPK 1510
+SP P P P
Sbjct: 289 SSPRERSPSPSPSS 302
Score = 39.0 bits (91), Expect = 0.024
Identities = 27/148 (18%), Positives = 34/148 (22%), Gaps = 29/148 (19%)
Query: 1362 SRPGDLDLGEGDGEAPCLPQRPRSAGYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFS 1421
P P P SA + PA A S S +SS G
Sbjct: 192 EPPPSTPPAAASPRPP-RRSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSGCG-- 248
Query: 1422 SCTAHMRNSWSETYEEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQRDSSYSDNISVYE 1481
W E P P P + +
Sbjct: 249 ---------WGPENECPLPRPAPITLPTRIWEASGWN-GPSSRPGPAS------------ 286
Query: 1482 DCVVPNTSFLFSTGSTSPSSPCPPPLPP 1509
++S + S SPSSP P P
Sbjct: 287 ----SSSSPRERSPSPSPSSPGSGPAPS 310
Score = 35.9 bits (83), Expect = 0.24
Identities = 43/216 (19%), Positives = 56/216 (25%), Gaps = 50/216 (23%)
Query: 1302 QLAPPGVQPLHKRLQERFAGLRQSIRKPPTESIIHSPLPPVPDQYINAGYHPVEEGEDIY 1361
+ A P + PP SP PP I+A
Sbjct: 181 ETARAPSSPPAEP----------PPSTPPAA---ASPRPPRRSSPISASA---------- 217
Query: 1362 SRPGDLDLGEGDGEAP-----CLPQRPRSAGYGTLPPADKPKPAHQRLPS---KSSVHKR 1413
S P +A G+G P+PA LP+ ++S
Sbjct: 218 SSPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNG 277
Query: 1414 QSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQRDSSY 1473
SS G +S +S S P P SG PS R S S S
Sbjct: 278 PSSRPGPAS------SSSSPRERSPSPSPSSP------GSGPAPSSPRASSSSSSSRESS 325
Query: 1474 SDNISVYEDCVVPNTSFLFSTGSTSPSSPCPPPLPP 1509
S + S + SP P P
Sbjct: 326 SSSTS--SSSESSR-----GAAVSPGPSPSRSPSPS 354
>gnl|CDD|217453 pfam03251, Tymo_45kd_70kd, Tymovirus 45/70Kd protein. Tymoviruses
are single stranded RNA viruses. This family includes a
protein of unknown function that has been named based on
its molecular weight. Tymoviruses such as the ononis
yellow mosaic tymovirus encode only three proteins. Of
these two are overlapping this protein overlaps a larger
ORF that is thought to be the polymerase.
Length = 458
Score = 39.7 bits (93), Expect = 0.011
Identities = 43/233 (18%), Positives = 63/233 (27%), Gaps = 40/233 (17%)
Query: 1303 LAPPGVQPLHKRLQERFAGLRQSIRKP--------PTESIIHSPLP------PVPDQYIN 1348
L P L + + E + +P P+ H LP ++
Sbjct: 84 LELPLHHSLLRHVHETLKVSQAPGEQPKLPRAPQLPSHPRRHRSLPHHLHHSSKHRNRLH 143
Query: 1349 AGYHPVEEGEDIYSRP--GDLDLGEGDGEAPCLPQR-PRSAGYGTLPPADKPKPAH-QRL 1404
A V + S + P+R PR + L P+ H
Sbjct: 144 ARRSDV-----LPSLSNSRPVHELPKPSTPVLQPRRSPRKQLHRPLSL---PRSLHLHNS 195
Query: 1405 PSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLP-----------PRGFTPD-KRS 1452
SS+H R+S A R +E P P P P R
Sbjct: 196 RQHSSLHPRRSPRRQLQP--APRRPLLAENQLHPLPSPQPVRHSPGILGPSPLHPHTTRP 253
Query: 1453 SGEPPSLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFLFSTGSTSPSSPCPP 1505
S P+ R S S + + +P S TS + P P
Sbjct: 254 SPPRPAFSRSPSSPLSPLPRPSTRRGLLPNPRLPRASRGHLPPPTSSAPPRPN 306
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 39.9 bits (93), Expect = 0.015
Identities = 43/238 (18%), Positives = 66/238 (27%), Gaps = 33/238 (13%)
Query: 1327 RKPPTESIIHSPLPPVPDQYINAGYHPVEEGEDIYSRPGDLDLGEGDGEAPCLPQRPRSA 1386
R+PP+ S P P V + ++ P D P P P+
Sbjct: 2864 RRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPD---QPERPPQPQAPPPPQPQ 2920
Query: 1387 GYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGF 1446
PP +P+P P + +G + + W PR
Sbjct: 2921 P--QPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFR 2978
Query: 1447 TPDKRSSGEPP--SLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFL------------- 1491
P S E P S R SS++ +++++E+ P S
Sbjct: 2979 VPQPAPSREAPASSTPPLTGHSLSRVSSWASSLALHEETDPPPVSLKQTLWPPDDTEDSD 3038
Query: 1492 -----------FSTGSTSPSSPCPPPLPPKVINSVVTSEETSHREVVTENYSVPKLQA 1538
+ P P P P T E RE + + P L A
Sbjct: 3039 ADSLFDSDSERSDLEALDPLPP-EPHDPFAHEPDPATPEA-GARESPSSQFGPPPLSA 3094
Score = 37.6 bits (87), Expect = 0.071
Identities = 43/222 (19%), Positives = 63/222 (28%), Gaps = 35/222 (15%)
Query: 1304 APPGVQPLHKRLQERFAGLRQSIRKP---PTESIIHSPLPPVPDQYI-NAGYHPVEEGED 1359
P G +P+H R+ GL + P + + P PD+ + P
Sbjct: 2523 EPVG-EPVHPRMLTWIRGLEELASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPA 2581
Query: 1360 IYSRPGDLDLGEGDGEAPCLPQRPRSAG------YGTLPPADKPKPAHQRLPSKSSVHKR 1413
+ SR +AP RPR+ G PP+ P H P S
Sbjct: 2582 VTSR-------ARRPDAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPA 2634
Query: 1414 QSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQRDSSY 1473
N P P R P + S RR + + +
Sbjct: 2635 A--------------NEPDPHPPPTVPPPER---PRDDPAPGRVSRPRRARRLGRAAQAS 2677
Query: 1474 SDNISVYEDCVVPNTSFLFSTGSTSPSSPCPPPLPPKVINSV 1515
S P L S P P P P P ++++
Sbjct: 2678 SPPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSAT 2719
>gnl|CDD|237605 PRK14086, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 617
Score = 38.7 bits (90), Expect = 0.025
Identities = 44/238 (18%), Positives = 61/238 (25%), Gaps = 49/238 (20%)
Query: 1298 VVHGQLAPPGVQPLHKRL--QERFAGLRQSIRKPPTESIIHSPLPPVPDQYINAGYHPVE 1355
V+ G+LAP + L + L R A P H+ P+ P
Sbjct: 61 VLEGRLAPIISETLSRELGRPIRIAITVDPSAGEPAPPPPHARRTSEPE-----LPRPGR 115
Query: 1356 EGEDIYSRPGDLDLGEGDGEAPCLP----------QRPRSAGY--------------GTL 1391
+ Y P D G LP QRP + G
Sbjct: 116 RPYEGYGGPRADDRPPGLPRQDQLPTARPAYPAYQQRPEPGAWPRAADDYGWQQQRLGFP 175
Query: 1392 PPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGFTPDKR 1451
P A PA + R+ D+G R+ + P R P+
Sbjct: 176 PRAPYASPAS---YAPEQERDREPYDAGRPEYDQRRRDYDHPRPDWDRPRRDRTDRPEPP 232
Query: 1452 SSGEPPSLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFLFSTGSTSPSSPCPPPLPP 1509
HR +RD + I S + P P P P
Sbjct: 233 PGAGHV--HRGGPGPPERDDAPVVPIRP-------------SAPGPLAAQPAPAPGPG 275
>gnl|CDD|202477 pfam02936, COX4, Cytochrome c oxidase subunit IV. Cytochrome c
oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the
terminal oxidase in the mitochondrial electron transport
chain. This family is composed of cytochrome c oxidase
subunit IV. The Dictyostelium member of this family is
called COX VI. The yeast protein MTC3 appears to be the
yeast COX IV subunit.
Length = 142
Score = 35.5 bits (82), Expect = 0.066
Identities = 27/108 (25%), Positives = 41/108 (37%), Gaps = 15/108 (13%)
Query: 1031 SYFDKGKCWEKGIPLCK---ELADLYEKRLFDYKKLSNILQTQA---QFCDNILNQLRPE 1084
+Y D WE + + L EK D+K LS + F + + P+
Sbjct: 12 TYADLPDRWEPMPRFREQSELIMALREKEKGDWKSLSLEEKKALYRISFGETGPEFVAPK 71
Query: 1085 PEYFRVGFY-----GLSFPLFVRNKVFVYRGLAY----ERMEAFTQRL 1123
E+ V G+SF LF+ + F Y L E EA +R+
Sbjct: 72 GEWKTVLGGVLAGLGISFGLFILMRTFAYPPLPKTMNKEWQEAQNERM 119
>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 = 36.2 bits (83), Expect = 0.14
Identities = 62/342 (18%), Positives = 123/342 (35%), Gaps = 72/342 (21%)
Query: 1025 LYYEIISYFDKGKCWEKGIPLCKELADLYEKRLFDYKKLSNILQTQAQFCDNILNQLRPE 1084
+Y II ++K + +E+ LA LY+ Y K++ ++ + +
Sbjct: 103 IYKLIIPIYEKRRDFER-------LAHLYDTLHRAYSKVTEVMHSGKRLLGT-------- 147
Query: 1085 PEYFRVGFYGLSFPLFVRNKVFVYRGLAYERMEAFTQRL----QTEFPSANILSKNSPPS 1140
YFRV F+G F K ++Y+ + +QRL +F S N+ K S
Sbjct: 148 --YFRVAFFGQGFFEDEDGKEYIYKEPKLTPLSEISQRLLKLYSDKFGSENV--KMIQDS 203
Query: 1141 HTIQQSDVQ----YIQICNVKPLPERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPM 1196
+ D+ YIQ+ +V P + + ++ + + +++R F + P
Sbjct: 204 GKVNPKDLDSKYAYIQVTHVTPYFDE---------KELQERKTDFERSHNIRRFMFEMPF 254
Query: 1197 HKGPIDKDNEFKSLWLERTIMTISSPLPGILRWFEVV-ESNVDLENP------------- 1242
+ + + RTI+T P + + V+ + + DL NP
Sbjct: 255 TQSG-KRQGGVEEQCKRRTILTAIHCFPYVKKRIPVMYQHHTDL-NPIEVAIDEMSKKVA 312
Query: 1243 ------------------GLQGTIDANVMGGIAKYQQAFFTPEFARGYPQYIPYINRLHI 1284
LQG++ V G Y +AF + YP + L
Sbjct: 313 ELRQLCSSAEVDMIKLQLKLQGSVSVQVNAGPLAYARAFLDDTNTKRYPD--NKVKLLKE 370
Query: 1285 LILEQVDVLENGLVVHGQLAPPGVQPLHKRLQERFAGLRQSI 1326
+ + V+ L V+ +L + ++ + + + +
Sbjct: 371 VFRQFVEACGQALAVNERLIKEDQLEYQEEMKANYREMAKEL 412
>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 = 35.4 bits (81), Expect = 0.26
Identities = 62/312 (19%), Positives = 119/312 (38%), Gaps = 60/312 (19%)
Query: 1059 DYKKLSNILQTQAQFCDNILNQL--RPEPEYFRVGFYGLSFPLFVRNKVFVYRGLAYERM 1116
D KKL+ I + I++Q R YFRVGFYG F + FVY+ A ++
Sbjct: 167 DAKKLATIHGKLQEAFSKIVHQDGKRMFGTYFRVGFYGTKFGDLDEQE-FVYKEPAITKL 225
Query: 1117 EAFTQRLQTEF------PSANILSKNSPPSHTIQQSDVQYIQICNVKPLPERGPPCINPP 1170
+ RL+ + ++ ++P + +IQI V+P +
Sbjct: 226 AEISHRLEGFYGERFGEDVVEVIKDSNPVDKCKLDPNKAFIQITYVEPYFDT-------- 277
Query: 1171 LAPVPDKIAQYYQVNDVRTFQLDRPMHKGPIDKD----NEFKSLWLERTIMTISSPLP-- 1224
+ D+I Y+ N + L R M+ P D E + +TI+T S P
Sbjct: 278 -YEMKDRIT-YFDKN----YNLRRFMYCTPFTLDGRAHGELHEQFKRKTILTTSHAFPYI 331
Query: 1225 ----GILRWFEVVESNVDL-----------------ENPG--------LQGTIDANVMGG 1255
++ E++ + +++ ++P LQG++ V G
Sbjct: 332 KTRINVIHKEEIILTPIEVAIEDMQKKTQELAFATHQDPADPKMLQMVLQGSVGTTVNQG 391
Query: 1256 IAKYQQAFFTPEFARGYPQYIPYINRLHILILEQVDVLENGLVVHGQLAPPGVQPLHKRL 1315
+ Q F + P+ + N+L + + E+ L + L P + + L
Sbjct: 392 PLEVAQVFLSE--IPSDPKLFRHHNKLRLCFKDFTKRCEDALRKNKSLIGPDQKEYQREL 449
Query: 1316 QERFAGLRQSIR 1327
+ + L+++++
Sbjct: 450 ERNYHRLKEALQ 461
>gnl|CDD|220232 pfam09421, FRQ, Frequency clock protein. The frequency clock
protein, is the central component of the frq-based
circadian negative feedback loop, regulates various
aspects of the circadian clock in Neurospora crassa. This
protein has been shown to interact with itself via a
coiled-coil.
Length = 989
Score = 34.6 bits (79), Expect = 0.49
Identities = 37/160 (23%), Positives = 53/160 (33%), Gaps = 33/160 (20%)
Query: 1379 LPQRPRSAGYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSET--YE 1436
LP+RP S + P ++ + V +D G S M WS+
Sbjct: 701 LPRRPLSDDRARVAEILDFDPLNEGVSIPELV-----TDDGDSPNDEDMEFPWSDDPQKL 755
Query: 1437 EAPPLPPRGF---TPD---------KRSSGEPPSLHRRQDSISQRDSSYSDNISVYEDCV 1484
E PL P G PD +RS P L R + + +S +
Sbjct: 756 EVRPLEPSGLGGVLPDDHFMVVVTTRRSLVMRPGLQRE---LGRSKTSEDTTDIIVN--- 809
Query: 1485 VPNTSFLFSTGSTSPSSPCPPPLPPKVINSVVTSEETSHR 1524
S S SSP P P ++ N+ + E S R
Sbjct: 810 --------RLASMSTSSPLPRPRSRRLSNAPIQIEYLSGR 841
>gnl|CDD|221336 pfam11951, Fungal_trans_2, Fungal specific transcription factor
domain. This family of are likely to be transcription
factors. This protein is found in fungi. Proteins in
this family are typically between 454 to 826 amino acids
in length. This protein is found associated with
pfam00172.
Length = 381
Score = 34.3 bits (79), Expect = 0.49
Identities = 18/70 (25%), Positives = 25/70 (35%), Gaps = 3/70 (4%)
Query: 376 EILNLLKWREHPEKIQEALNQALCLEGQELVKFLQDI---LDALFSMFSTEDGNSTMHSG 432
EI L + + K E L L Q L + L LD L S D S +
Sbjct: 200 EITRLAREKRELRKDSELLPLELLERAQALERRLLSWEPRLDPLESPLDGVDALSRLLLT 259
Query: 433 LVFHVLTHIF 442
+F + I+
Sbjct: 260 ELFRLAALIY 269
>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 = 33.1 bits (76), Expect = 0.54
Identities = 30/133 (22%), Positives = 62/133 (46%), Gaps = 8/133 (6%)
Query: 185 RNDLYLILERGEFEKGGKSTGKNIEVTVQVLDSDGTV--LQNCLWGASGSDTSSEYHSMI 242
RN LY+ + F S +NI V VQ++ + L G+S + +E ++ +
Sbjct: 2 RNLLYVYPQSLNFSNRLGSA-RNIAVKVQLMSGEDESQALPVIFKGSSPEEFLTEAYTAV 60
Query: 243 IYHHNSPCWSEIIRLAVPIERYQSSHIRLEYRHCSTRDKADN---KKLLGFSFARLMEPS 299
YH+ SP + + I++ +P + + H+ + H S + K + + +G+++ L+
Sbjct: 61 TYHNKSPDFYDEIKIKLPADLTDNHHLLFTFYHISCQKKQEGGSVETPIGYTWLPLLR-- 118
Query: 300 GATLQDCQHELFI 312
LQ + L +
Sbjct: 119 NGRLQSGEFNLPV 131
>gnl|CDD|223201 COG0123, AcuC, Deacetylases, including yeast histone deacetylase
and acetoin utilization protein [Chromatin structure and
dynamics / Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 340
Score = 32.7 bits (75), Expect = 1.7
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 878 KLDILISDNKGDDEYRQLFNTILLDRVQNEDP 909
++I + GDD Y + I+L ++ P
Sbjct: 209 NVNIPLPPGTGDDSYLEALEEIVLPLLEEFKP 240
>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 = 32.7 bits (74), Expect = 1.8
Identities = 54/270 (20%), Positives = 101/270 (37%), Gaps = 66/270 (24%)
Query: 1052 LYEKRLFDYKKLSNILQTQAQFCDNILNQLRPEPE----YFRVGFYGLSFPLFVRNKVFV 1107
+YEKR +++KL+ + +T IL + +FRV FYG F K ++
Sbjct: 111 IYEKR-REFEKLTQLYRTLHGAYAKILEVMHTGKRLLGTFFRVAFYGQGFFEEEDGKEYI 169
Query: 1108 YRGLAYERMEAFTQRL----QTEFPSANILSKNSPPSHTIQQSDVQ----YIQICNVKPL 1159
Y+ + + RL +F S N+ K S+ + Q D+ +IQ+ VKP
Sbjct: 170 YKEPKLTGLSEISHRLLKLYGEKFGSENV--KIIQDSNKVNQKDLDPKYAHIQVTYVKPY 227
Query: 1160 PERGPPCINPPLAPVPDKIAQYYQVNDVRTFQLDRPM-----HKGPIDKDNEFKSLWLER 1214
+ + ++ ++ + ++++ F + P +G +++ + R
Sbjct: 228 FDD---------KEMAERKTEFERNHNIQRFVFETPYTLSGKKQGGVEEQCK------RR 272
Query: 1215 TIMTISSPLPGILRWFEVV-ESNVDLE------------------------------NPG 1243
TI+T ++ P + + V E +L+
Sbjct: 273 TILTTANSFPYVKKRIPVNGEKQTNLKPIDVATDEIKDKTAELQKLCSNQDVDMIQLQLK 332
Query: 1244 LQGTIDANVMGGIAKYQQAFFTPEFARGYP 1273
LQG + V G Y +AF A YP
Sbjct: 333 LQGCVSVQVNAGPLAYARAFLDDSQASKYP 362
>gnl|CDD|150503 pfam09840, DUF2067, Uncharacterized protein conserved in archaea
(DUF2067). This domain, found in various archaeal
proteins, has no known function.
Length = 190
Score = 31.5 bits (72), Expect = 2.0
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 12/93 (12%)
Query: 489 RLLFSRATGGQYEEG-FQRDLFAVFNALNSMLSVSYDIILDT------QVTFKSGWVTLN 541
+ L +G F+ L +F L V D++ D +V + + N
Sbjct: 55 KELAREVRRKYRRKGLFEYPLSDLFRELGR--PVPPDLLADALRLLGYRVEVRGDVIKTN 112
Query: 542 RDYQLILEVAKFASDMLECLGKREAQPLLTKAK 574
+ ++EVA+ S++ + L QPL TKAK
Sbjct: 113 APLEEVVEVARELSEIYKEL---RFQPLTTKAK 142
>gnl|CDD|223033 PHA03291, PHA03291, envelope glycoprotein I; Provisional.
Length = 401
Score = 31.8 bits (72), Expect = 2.8
Identities = 22/113 (19%), Positives = 32/113 (28%), Gaps = 4/113 (3%)
Query: 1363 RPGDLDLGEGDGEAPCLPQRPRSAGYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSS 1422
LGEG + C P P SA L PAD PA R +++ + ++
Sbjct: 171 TLAAPPLGEGSADGSCDPALPLSA--PRLGPADVFVPATPRPTPRTTASPETTPTPSTTT 228
Query: 1423 CTAHMRNSWSETYEEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQ--RDSSY 1473
T AP + P + + S Y
Sbjct: 229 SPPSTTIPAPSTTIAAPQAGTTPEAEGTPAPPTPGGGEAPPANATPAPEASRY 281
>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 624
Score = 32.0 bits (72), Expect = 3.2
Identities = 20/93 (21%), Positives = 29/93 (31%), Gaps = 8/93 (8%)
Query: 1383 PRSAGYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLP 1442
P S G T+P P Q + S + ++ S +++APP P
Sbjct: 389 PASGGAATIPT-----PGTQGPQGTAPAAGMTPSSAAPATPAPSAAPSPRVPWDDAPPAP 443
Query: 1443 PRGFTP---DKRSSGEPPSLHRRQDSISQRDSS 1472
PR P R P S D+
Sbjct: 444 PRSGIPPRPAPRMPEASPVPGAPDSVASASDAP 476
>gnl|CDD|238952 cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine
nucleotide alpha hydrolases superfamily.Adeninosine
nucleotide alpha hydrolases superfamily includes N type
ATP PPases and ATP sulphurylases. It forms a
apha/beta/apha fold which binds to Adenosine group.
This subfamily of proteins is predicted to bind ATP.
This domainhas a strongly conserved motif SGGKD at the
N terminus.
Length = 194
Score = 31.0 bits (71), Expect = 3.7
Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 568 PLLTKAKLECIKNLVSGKLFSEDESRSYLLARICKHLRL-HLA---HRDELKLCTEILSE 623
LL K K E + +V G + SE + R+ + R+C+ L L LA RD+ +L E++
Sbjct: 79 ELLRKLKEEGVDAVVFGAILSEYQ-RTR-VERVCERLGLEPLAPLWGRDQEELLREMIEA 136
>gnl|CDD|216269 pfam01056, Myc_N, Myc amino-terminal region. The myc family belongs
to the basic helix-loop-helix leucine zipper class of
transcription factors, see pfam00010. Myc forms a
heterodimer with Max, and this complex regulates cell
growth through direct activation of genes involved in
cell replication. Mutations in the C-terminal 20 residues
of this domain cause unique changes in the induction of
apoptosis, transformation, and G2 arrest.
Length = 329
Score = 31.1 bits (70), Expect = 4.3
Identities = 20/94 (21%), Positives = 29/94 (30%), Gaps = 10/94 (10%)
Query: 1436 EEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFLFSTG 1495
E P P + R S Q S+ + +C+ P+ F +
Sbjct: 142 EGLPSDSPAPAPSPRGRPHPASGSGRLSASYLQDLSTSA------SECIDPSVVFPYPLN 195
Query: 1496 STSPSSPCPPPLPPKVI----NSVVTSEETSHRE 1525
S SS P P + NS +S S E
Sbjct: 196 ERSKSSKVASPTPRLGLRTPPNSSSSSGSDSESE 229
>gnl|CDD|223061 PHA03369, PHA03369, capsid maturational protease; Provisional.
Length = 663
Score = 31.5 bits (71), Expect = 4.6
Identities = 12/91 (13%), Positives = 17/91 (18%), Gaps = 3/91 (3%)
Query: 1432 SETYEEAPPLPPRGFTPDKRSSGEPPSLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFL 1491
++ A P G +R + V P
Sbjct: 364 AKVAVIAAPQTHTGPADRQRPQRPDGIPYSVPARSPMTAYPPVPQFCGDPGLVSPYNPQS 423
Query: 1492 FSTGSTSPSSPCPPPLPPKVINSVVTSEETS 1522
T PP P N V +
Sbjct: 424 PGTSYGPEPVGPVPPQPT---NPYVMPISMA 451
>gnl|CDD|218440 pfam05110, AF-4, AF-4 proto-oncoprotein. This family consists of AF4
(Proto-oncogene AF4) and FMR2 (Fragile X E mental
retardation syndrome) nuclear proteins. These proteins
have been linked to human diseases such as acute
lymphoblastic leukaemia and mental retardation. The
family also contains a Drosophila AF4 protein homologue
Lilliputian which contains an AT-hook domain. Lilliputian
represents a novel pair-rule gene that acts in
cytoskeleton regulation, segmentation and morphogenesis
in Drosophila.
Length = 1154
Score = 31.4 bits (71), Expect = 4.8
Identities = 30/117 (25%), Positives = 38/117 (32%), Gaps = 12/117 (10%)
Query: 1394 ADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGFTPDKRSS 1453
ADK + QRL KSS SS S S + S EE P
Sbjct: 758 ADKIESKKQRLEEKSSSCSPSSSSSHHHSSSNKESRKSSRNKEEEMLPSPSSPLSSSSPK 817
Query: 1454 GEPPSLHRRQDSISQRDSSYSDNISVYEDCVVPNTSFLFSTGSTSPSSPCPPPLPPK 1510
E PS R+ Q D+S S P ++ + S S S+ K
Sbjct: 818 PEHPS---RKRPRRQEDTSSSSG---------PFSASSTKSSSKSSSTSKHRKTEGK 862
>gnl|CDD|220172 pfam09309, FCP1_C, FCP1, C-terminal. The C-terminal domain of FCP-1
is required for interaction with the carboxy terminal
domain of RAP74. Interaction relies extensively on van
der Waals contacts between hydrophobic residues situated
within alpha-helices in both domains.
Length = 263
Score = 30.7 bits (69), Expect = 5.3
Identities = 23/77 (29%), Positives = 27/77 (35%), Gaps = 14/77 (18%)
Query: 1392 PPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWSETYEEAPPLPPRGFTPDKR 1451
P A P P H PS H SS M EEAP + D
Sbjct: 71 PQASAPAPFHAPGPSSLPDHGEPSSFRAVQPHQPQMFG------EEAPS------SQDGE 118
Query: 1452 SSGEPPSLHRRQDSISQ 1468
G PS +RQ S+S+
Sbjct: 119 QPG--PSRRKRQPSMSE 133
>gnl|CDD|216368 pfam01213, CAP_N, Adenylate cyclase associated (CAP) N terminal.
Length = 313
Score = 30.6 bits (69), Expect = 7.1
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 4/63 (6%)
Query: 1484 VVPNTSFLFSTGSTSPSSPCPPPLPPKVINSVVTSEETSHREVVTENYSVPKLQAGEETN 1543
V S L + S++PS+P PPP PP +++ S E N
Sbjct: 215 VAAAKSALPAVSSSAPSAPPPPPPPPPPSVPTISNSVESASSDSKGGRG----AVFAELN 270
Query: 1544 QGE 1546
+GE
Sbjct: 271 KGE 273
>gnl|CDD|185628 PTZ00449, PTZ00449, 104 kDa microneme/rhoptry antigen; Provisional.
Length = 943
Score = 30.8 bits (69), Expect = 7.1
Identities = 38/144 (26%), Positives = 48/144 (33%), Gaps = 15/144 (10%)
Query: 1373 DGEAPCLPQRPRSAGYGTLPPADKPKPAHQRLPSKSSVHKRQSSDSGFSSCTAHMRNSWS 1432
D E P P+RPRSA T P + K P +P KR S R S S
Sbjct: 590 DPEEPKKPKRPRSAQRPTRPKSPK-LPELLDIPKSP---KRPESPKSPKRPPPPQRPS-S 644
Query: 1433 ETYEEAPPLPPRGFTPDKRSSGEPPSLHRR-QDSISQRDSSYSDNISVYEDCVVPNTSFL 1491
E P + P P + D + + + VV + SF
Sbjct: 645 PERPEGPKIIKSPKPPKSPKPPFDPKFKEKFYDDYLDAAAKSKETKTT----VVLDESFE 700
Query: 1492 FSTGSTSPSSP-----CPPPLPPK 1510
T P +P P PLPPK
Sbjct: 701 SILKETLPETPGTPFTTPRPLPPK 724
>gnl|CDD|172376 PRK13855, PRK13855, type IV secretion system protein VirB10;
Provisional.
Length = 376
Score = 30.3 bits (68), Expect = 8.5
Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 2/70 (2%)
Query: 1375 EAPCLPQRPRSAGYGTLPPADKPKPAHQRL-PSKSSVHKRQSSDSGFSSCTAHMR-NSWS 1432
+ P P + A T PP+ + +P P ++ + S D G S H +
Sbjct: 79 DVPPDPPAAQEAVQPTAPPSAQSEPERNEPRPEETPIFAYSSGDQGGSKRAGHGDTDRRQ 138
Query: 1433 ETYEEAPPLP 1442
+ E LP
Sbjct: 139 DDNREDNSLP 148
>gnl|CDD|188996 cd06457, M3A_MIP, Peptidase M3 mitochondrial intermediate peptidase
(MIP). Peptidase M3 mitochondrial intermediate
peptidase (MIP; EC 3.4.24.59) belongs to the widespread
subfamily M3A, that show similarity to the Thimet
oligopeptidase (TOP). It is one of three peptidases
responsible for the proteolytic processing of both,
nuclear and mitochondrial encoded precursor polypeptides
targeted to the various subcompartments of the
mitochondria. It cleaves intermediate-size proteins
initially processed by mitochondrial processing
peptidase (MPP) to yield a processing intermediate with
a typical N-terminal octapeptide that is sequentially
cleaved by MIP to mature-size protein. MIP cleaves
precursor proteins of respiratory components, including
subunits of the electron transport chain and
tri-carboxylic acid cycle enzymes, and components of the
mitochondrial genetic machinery, including ribosomal
proteins, translation factors, and proteins required for
mitochondrial DNA metabolism. It has been suggested that
the human MIP (HMIP polypeptide; gene symbol MIPEP) may
be one of the loci predicted to influence the clinical
manifestations of Friedreich's ataxia (FRDA), an
autosomal recessive neurodegenerative disease caused by
lack of human frataxin. These proteins are enriched in
cysteine residues, two of which are highly conserved,
suggesting their importance to stability as well as in
formation of metal binding sites, thus playing a role in
MIP activity.
Length = 606
Score = 30.6 bits (70), Expect = 9.0
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 87 EGFSNYVEKLNSNRTIFTDLGTADLNKDIH--------VVAHIFRM 124
E Y+ LN+N ++ L +A +K++ VA +
Sbjct: 82 EKLFEYMNVLNTNVGLYDALKSALEDKEVVASLSEEERRVAKLLLF 127
>gnl|CDD|107208 cd06447, D-Ser-dehyd, D-Serine dehydratase is a pyridoxal phosphate
(PLP)-dependent enzyme which catalyzes the conversion of
L- or D-serine to pyruvate and ammonia. D-serine
dehydratase serves as a detoxifying enzyme in most E.
coli strains where D-serine is a competitive antagonist
of beta-alanine in the biosynthetic pathway to
pentothenate and coenzyme A. D-serine dehydratase is
different from other pyridoxal-5'-phosphate-dependent
enzymes in that it catalyzes alpha, beta-elimination
reactions on amino acids.
Length = 404
Score = 30.0 bits (68), Expect = 10.0
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 1303 LAPPGVQPL---HKRLQERFAGLRQSIRKPPTES---IIHSPLPPVP--DQYINAGYHPV 1354
LAP + + RL+ RFA + P T + II SPL P+P Q + YH
Sbjct: 15 LAPLSREDIFDAEARLK-RFAPYIAKVF-PETAASHGIIESPLLPIPRMKQALEKLYHQP 72
Query: 1355 EEGE 1358
+G
Sbjct: 73 IKGR 76
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
0.319 0.136 0.408
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: 79,929,335
Number of extensions: 8026852
Number of successful extensions: 6648
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6590
Number of HSP's successfully gapped: 69
Length of query: 1561
Length of database: 10,937,602
Length adjustment: 110
Effective length of query: 1451
Effective length of database: 6,058,662
Effective search space: 8791118562
Effective search space used: 8791118562
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: 66 (29.2 bits)