RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8293
(124 letters)
>gnl|CDD|239840 cd04375, RhoGAP_DLC1, RhoGAP_DLC1: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain of DLC1-like
proteins. DLC1 shows in vitro GAP activity towards RhoA
and CDC42. Beside its C-terminal GAP domain, DLC1 also
contains a SAM (sterile alpha motif) and a START
(StAR-related lipid transfer action) domain. DLC1 has
tumor suppressor activity in cell culture. Small GTPases
cluster into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 220
Score = 160 bits (406), Expect = 7e-51
Identities = 66/103 (64%), Positives = 79/103 (76%), Gaps = 1/103 (0%)
Query: 15 SVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVD 74
+VFGVPLLVN+Q+TG LP+ I + WL NNA DQ+G+FRK GVK+RIQKLR M E
Sbjct: 3 NVFGVPLLVNLQRTGQPLPRSIQQAMRWLRNNALDQVGLFRKSGVKSRIQKLRSM-IESS 61
Query: 75 FKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
D QQAYDVAD++KQYFR+LPE LLTNK SETF++IFQ
Sbjct: 62 TDNVNYDGQQAYDVADMLKQYFRDLPEPLLTNKLSETFIAIFQ 104
>gnl|CDD|216027 pfam00620, RhoGAP, RhoGAP domain. GTPase activator proteins
towards Rho/Rac/Cdc42-like small GTPases.
Length = 152
Score = 81.8 bits (203), Expect = 5e-21
Identities = 29/85 (34%), Positives = 45/85 (52%)
Query: 33 PKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLV 92
P + E+L D GIFR G +RI++LRE D + +++ + + VA L+
Sbjct: 1 PLIVEKCVEFLEKRGLDTEGIFRVSGSASRIKELREAFDSGEDVDLDLEEEDVHVVASLL 60
Query: 93 KQYFRELPEVLLTNKSSETFMSIFQ 117
K + RELPE LLT + E F+ +
Sbjct: 61 KLFLRELPEPLLTFELYEEFIEAAK 85
>gnl|CDD|214618 smart00324, RhoGAP, GTPase-activator protein for Rho-like GTPases.
GTPase activator proteins towards Rho/Rac/Cdc42-like
small GTPases. etter domain limits and outliers.
Length = 174
Score = 76.2 bits (188), Expect = 1e-18
Identities = 27/86 (31%), Positives = 45/86 (52%)
Query: 32 LPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADL 91
+P + E+L D GI+R G K+R+++LR+ D ++ +DVA L
Sbjct: 3 IPIIVEKCIEYLEKRGLDTEGIYRVSGSKSRVKELRDAFDSGPDPDLDLSEYDVHDVAGL 62
Query: 92 VKQYFRELPEVLLTNKSSETFMSIFQ 117
+K + RELPE L+T + E F+ +
Sbjct: 63 LKLFLRELPEPLITYELYEEFIEAAK 88
>gnl|CDD|238090 cd00159, RhoGAP, RhoGAP: GTPase-activator protein (GAP) for
Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small
GTPases. Small GTPases (G proteins) cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when bound
to GDP. The Rho family of small G proteins, which
includes Cdc42Hs, activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. G proteins generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude. The
RhoGAPs are one of the major classes of regulators of
Rho G proteins.
Length = 169
Score = 70.4 bits (173), Expect = 2e-16
Identities = 27/85 (31%), Positives = 48/85 (56%), Gaps = 1/85 (1%)
Query: 33 PKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLV 92
P I E+L N + GIFR G ++I++L++ D + +D+++ +DVA L+
Sbjct: 1 PLIIEKCIEYLEKNGLNTEGIFRVSGSASKIEELKKKFDRGED-IDDLEDYDVHDVASLL 59
Query: 93 KQYFRELPEVLLTNKSSETFMSIFQ 117
K Y RELPE L+ + + F+ + +
Sbjct: 60 KLYLRELPEPLIPFELYDEFIELAK 84
>gnl|CDD|239863 cd04398, RhoGAP_fRGD1, RhoGAP_fRGD1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
fungal RGD1-like proteins. Yeast Rgd1 is a GAP protein
for Rho3 and Rho4 and plays a role in low-pH response.
Small GTPases cluster into distinct families, and all
act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 192
Score = 60.9 bits (148), Expect = 2e-12
Identities = 35/100 (35%), Positives = 50/100 (50%), Gaps = 4/100 (4%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE---- 72
FGVPL I + G +P + + + N + GI+R G +R+ KL+E+ D+
Sbjct: 1 FGVPLEDLILREGDNVPNIVYQCIQAIENFGLNLEGIYRLSGNVSRVNKLKELFDKDPLN 60
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETF 112
V E + VA L+K +FRELPE LLT S F
Sbjct: 61 VLLISPEDYESDIHSVASLLKLFFRELPEPLLTKALSREF 100
>gnl|CDD|239859 cd04394, RhoGAP-ARHGAP11A, RhoGAP-ARHGAP11A: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of ArhGAP11A-like proteins. The mouse
homolog of human ArhGAP11A has been detected as a gene
exclusively expressed in immature ganglion cells,
potentially playing a role in retinal development. The
exact function of ArhGAP11A is unknown. Small GTPases
cluster into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 202
Score = 56.7 bits (137), Expect = 5e-11
Identities = 36/103 (34%), Positives = 57/103 (55%), Gaps = 7/103 (6%)
Query: 16 VFGVPL--LVNIQKTGY-ALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
VFGVPL L + Y +PKF++ + +L+++ S + G+FRK G R ++L+ +
Sbjct: 1 VFGVPLHSLPHSTVPEYGNVPKFLVDACTFLLDHLSTE-GLFRKSGSVVRQKELKA---K 56
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSI 115
++ + S DVA L+KQ+FRELPE LL E +
Sbjct: 57 LEGGEACLSSALPCDVAGLLKQFFRELPEPLLPYDLHEALLKA 99
>gnl|CDD|239841 cd04376, RhoGAP_ARHGAP6, RhoGAP_ARHGAP6: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP6-like proteins. ArhGAP6 shows GAP activity
towards RhoA, but not towards Cdc42 and Rac1. ArhGAP6 is
often deleted in microphthalmia with linear skin defects
syndrome (MLS); MLS is a severe X-linked developmental
disorder. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 206
Score = 56.7 bits (137), Expect = 5e-11
Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 32 LPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEV-DFKLDEVDSQQAYDVAD 90
+P+ + S + L + +GIFR K R+++LRE D D LDE + +DVA
Sbjct: 9 VPRLVESCCQHLEKHGLQTVGIFRVGSSKKRVRQLREEFDRGIDVVLDE--NHSVHDVAA 66
Query: 91 LVKQYFRELPEVLLT 105
L+K++FR++P+ LL
Sbjct: 67 LLKEFFRDMPDPLLP 81
>gnl|CDD|239850 cd04385, RhoGAP_ARAP, RhoGAP_ARAP: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain present in
ARAPs. ARAPs (also known as centaurin deltas) contain,
besides the RhoGAP domain, an Arf GAP, ankyrin repeat
ras-associating, and PH domains. Since their ArfGAP
activity is PIP3-dependent, ARAPs are considered
integration points for phosphoinositide, Arf and Rho
signaling. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 184
Score = 55.0 bits (133), Expect = 2e-10
Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 20 PLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLRE--MADEVDFKL 77
P L + Q T +P + +++ + GI+RK G + ++KL E D +L
Sbjct: 3 PALEDQQLTDNDIPVIVDKCIDFITQHGLMSEGIYRKNGKNSSVKKLLEAFRKDARSVQL 62
Query: 78 DEVDSQQAYDVADLVKQYFRELPEVLLTNKS 108
E +DVAD++K++ R+LP+ LLT++
Sbjct: 63 RE-GEYTVHDVADVLKRFLRDLPDPLLTSEL 92
>gnl|CDD|239846 cd04381, RhoGap_RalBP1, RhoGap_RalBP1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain present
in RalBP1 proteins, also known as RLIP, RLIP76 or
cytocentrin. RalBP1 plays an important role in
endocytosis during interphase. During mitosis, RalBP1
transiently associates with the centromere and has been
shown to play an essential role in the proper assembly
of the mitotic apparatus. RalBP1 is an effector of the
Ral GTPase which itself is an effector of Ras. RalBP1
contains a RhoGAP domain, which shows weak activity
towards Rac1 and Cdc42, but not towards Ral, and a Ral
effector domain binding motif. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 182
Score = 52.8 bits (127), Expect = 1e-09
Identities = 27/95 (28%), Positives = 49/95 (51%), Gaps = 8/95 (8%)
Query: 17 FGVPLLVNIQKT----GYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
FG L + ++++ G LP +++ + GI++ G+K+++ +L+ +
Sbjct: 1 FGASLSLAVERSRCHDGIDLPLVFRECIDYVEKHGMKCEGIYKVSGIKSKVDELKAAYNR 60
Query: 73 VDF-KLDEVDSQQAYDVADLVKQYFRELPEVLLTN 106
+ L+E + VA L+KQY RELPE LLT
Sbjct: 61 RESPNLEEYE---PPTVASLLKQYLRELPEPLLTK 92
>gnl|CDD|239865 cd04400, RhoGAP_fBEM3, RhoGAP_fBEM3: RhoGAP (GTPase-activator [GAP]
protein for Rho-like small GTPases) domain of fungal
BEM3-like proteins. Bem3 is a GAP protein of Cdc42, and
is specifically involved in the control of the initial
assembly of the septin ring in yeast bud formation.
Small GTPases cluster into distinct families, and all
act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 190
Score = 52.7 bits (127), Expect = 1e-09
Identities = 33/109 (30%), Positives = 52/109 (47%), Gaps = 10/109 (9%)
Query: 16 VFGVPLLV-----NIQKTGYALPKFIISSFEWLI-NNASDQIGIFRKPGVKTRIQKLREM 69
+FG PL + + G LP + E+L N A + GIFR G + I++L+E
Sbjct: 1 IFGSPLEEAVELSSHKYNGRDLPSVVYRCIEYLDKNRAIYEEGIFRLSGSASVIKQLKER 60
Query: 70 ADEVDFKLDEVDSQQAYD---VADLVKQYFRELPEVLLTNKSSETFMSI 115
+ ++ +D S D VA L+K Y RELP ++L + F +
Sbjct: 61 FNT-EYDVDLFSSSLYPDVHTVAGLLKLYLRELPTLILGGELHNDFKRL 108
>gnl|CDD|239849 cd04384, RhoGAP_CdGAP, RhoGAP_CdGAP: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
CdGAP-like proteins; CdGAP contains an N-terminal RhoGAP
domain and a C-terminal proline-rich region, and it is
active on both Cdc42 and Rac1 but not RhoA. CdGAP is
recruited to focal adhesions via the interaction with
the scaffold protein actopaxin (alpha-parvin). Small
GTPases cluster into distinct families, and all act as
molecular switches, active in their GTP-bound form but
inactive when GDP-bound. The Rho family of GTPases
activates effectors involved in a wide variety of
developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 195
Score = 52.9 bits (127), Expect = 1e-09
Identities = 34/105 (32%), Positives = 50/105 (47%), Gaps = 3/105 (2%)
Query: 15 SVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE-- 72
VFG L ++ +G +P+ + S E+ I GI+R G+ + IQ+LR D
Sbjct: 1 RVFGCDLTEHLLNSGQDVPQVLKSCTEF-IEKHGIVDGIYRLSGIASNIQRLRHEFDSEQ 59
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+ +V Q + V+ L K YFRELP LLT + E F
Sbjct: 60 IPDLTKDVYIQDIHSVSSLCKLYFRELPNPLLTYQLYEKFSEAVS 104
>gnl|CDD|239856 cd04391, RhoGAP_ARHGAP18, RhoGAP_ARHGAP18: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP18-like proteins. The function of ArhGAP18 is
unknown. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 216
Score = 52.7 bits (127), Expect = 2e-09
Identities = 35/109 (32%), Positives = 50/109 (45%), Gaps = 12/109 (11%)
Query: 16 VFGVP---LLVNIQKT--GYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMA 70
+FGVP LL QK G +P L + GI R PG R++ L +
Sbjct: 1 LFGVPLSTLLERDQKKVPGSKVPLIFQKLINKLEERGLETEGILRIPGSAQRVKFLCQEL 60
Query: 71 D----EVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSI 115
+ E F D+V + +D A L+K + RELP+ LLT + F S+
Sbjct: 61 EAKFYEGTFLWDQV---KQHDAASLLKLFIRELPQPLLTVEYLPAFYSV 106
>gnl|CDD|239862 cd04397, RhoGAP_fLRG1, RhoGAP_fLRG1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
fungal LRG1-like proteins. Yeast Lrg1p is required for
efficient cell fusion, and mother-daughter cell
separation, possibly through acting as a RhoGAP
specifically regulating 1,3-beta-glucan synthesis. Small
GTPases cluster into distinct families, and all act as
molecular switches, active in their GTP-bound form but
inactive when GDP-bound. The Rho family of GTPases
activates effectors involved in a wide variety of
developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 213
Score = 49.3 bits (118), Expect = 3e-08
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 6/66 (9%)
Query: 52 GIFRKPGVKTRIQKLREMADEVDFKLDEVD---SQQAYDVADLVKQYFRELPEVLLTNKS 108
G+FRK G I++L+E+ +E+D EV + +A L+K++ RELP+ LLT K
Sbjct: 47 GVFRKNG---NIRRLKELTEEIDKNPTEVPDLSKENPVQLAALLKKFLRELPDPLLTFKL 103
Query: 109 SETFMS 114
++S
Sbjct: 104 YRLWIS 109
>gnl|CDD|239842 cd04377, RhoGAP_myosin_IX, RhoGAP_myosin_IX: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain present in class IX myosins. Class IX
myosins contain a characteristic head domain, a neck
domain, a tail domain which contains a C6H2-zinc binding
motif and a RhoGAP domain. Class IX myosins are
single-headed, processive myosins that are partly
cytoplasmic, and partly associated with membranes and
the actin cytoskeleton. Class IX myosins are implicated
in the regulation of neuronal morphogenesis and function
of sensory systems, like the inner ear. There are two
major isoforms, myosin IXA and IXB with several splice
variants, which are both expressed in developing
neurons. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 186
Score = 49.0 bits (117), Expect = 4e-08
Identities = 27/101 (26%), Positives = 49/101 (48%), Gaps = 10/101 (9%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREM----ADE 72
FGV L ++ ++P + E + + GI+RK G +I++LR+ D
Sbjct: 1 FGVSL-SSLTSEDRSVPLVLEKLLEHIEMHGLYTEGIYRKSGSANKIKELRQGLDTDPDS 59
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFM 113
V+ + + + ++KQ+ RELPE L+T + E F+
Sbjct: 60 VNL-----EDYPIHVITSVLKQWLRELPEPLMTFELYENFL 95
>gnl|CDD|239852 cd04387, RhoGAP_Bcr, RhoGAP_Bcr: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain of Bcr
(breakpoint cluster region protein)-like proteins. Bcr
is a multidomain protein with a variety of enzymatic
functions. It contains a RhoGAP and a Rho GEF domain, a
Ser/Thr kinase domain, an N-terminal oligomerization
domain, and a C-terminal PDZ binding domain, in addition
to PH and C2 domains. Bcr is a negative regulator of:
i) RacGTPase, via the Rho GAP domain, ii) the
Ras-Raf-MEK-ERK pathway, via phosphorylation of the Ras
binding protein AF-6, and iii) the Wnt signaling pathway
through binding beta-catenin. Bcr can form a complex
with beta-catenin and Tcf1. The Wnt signaling pathway
is involved in cell proliferation, differentiation, and
cell renewal. Bcr was discovered as a fusion partner of
Abl. The Bcr-Abl fusion is characteristic for a large
majority of chronic myelogenous leukemias (CML). Small
GTPases cluster into distinct families, and all act as
molecular switches, active in their GTP-bound form but
inactive when GDP-bound. The Rho family of GTPases
activates effectors involved in a wide variety of
developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 196
Score = 46.5 bits (110), Expect = 3e-07
Identities = 30/95 (31%), Positives = 47/95 (49%), Gaps = 7/95 (7%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD----E 72
FGV + ++ +P + E + +++GI+R GV T IQ L+ D +
Sbjct: 1 FGVKISTVTKRERSKVPYIVRQCVEEVERRGMEEVGIYRISGVATDIQALKAAFDTNNKD 60
Query: 73 VDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNK 107
V L E+D +A +K YFRELPE L T++
Sbjct: 61 VSVMLSEMDVNA---IAGTLKLYFRELPEPLFTDE 92
>gnl|CDD|239858 cd04393, RhoGAP_FAM13A1a, RhoGAP_FAM13A1a: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
FAM13A1, isoform a-like proteins. The function of
FAM13A1a is unknown. Small GTPases cluster into distinct
families, and all act as molecular switches, active in
their GTP-bound form but inactive when GDP-bound. The
Rho family of GTPases activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell proliferation
and the JNK signaling pathway. GTPases generally have a
low intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by up several orders of magnitude.
Length = 189
Score = 46.3 bits (110), Expect = 4e-07
Identities = 33/108 (30%), Positives = 51/108 (47%), Gaps = 11/108 (10%)
Query: 16 VFGVPL--LVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD-- 71
VFGVPL L + +P + E+L + +Q G+FR G ++ LR+ D
Sbjct: 2 VFGVPLQELQQAGQPENGVPAVVRHIVEYLEQHGLEQEGLFRVNGNAETVEWLRQRLDSG 61
Query: 72 -EVDF-KLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
EVD K +V S A L++ + +ELPE L+ M ++Q
Sbjct: 62 EEVDLSKEADVCS-----AASLLRLFLQELPEGLIPASLQIRLMQLYQ 104
>gnl|CDD|239851 cd04386, RhoGAP_nadrin, RhoGAP_nadrin: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
Nadrin-like proteins. Nadrin, also named Rich-1, has
been shown to be involved in the regulation of
Ca2+-dependent exocytosis in neurons and recently has
been implicated in tight junction maintenance in
mammalian epithelium. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 203
Score = 45.9 bits (109), Expect = 6e-07
Identities = 29/106 (27%), Positives = 51/106 (48%), Gaps = 1/106 (0%)
Query: 13 NNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE 72
VFG PL ++++TG + I + L+ ++ G+FR G +++++L+ D
Sbjct: 1 EKPVFGTPLEEHLKRTGREIALPIEACVMCLLETGMNEEGLFRVGGGASKLKRLKAALDA 60
Query: 73 VDFKLDEVDS-QQAYDVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
F L + + VA +K Y RELP+ LLT E ++
Sbjct: 61 GTFSLPLDEFYSDPHAVASALKSYLRELPDPLLTYNLYEDWVQAAN 106
>gnl|CDD|239869 cd04404, RhoGAP-p50rhoGAP, RhoGAP-p50rhoGAP: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of p50RhoGAP-like proteins; p50RhoGAP,
also known as RhoGAP-1, contains a C-terminal RhoGAP
domain and an N-terminal Sec14 domain which binds
phosphatidylinositol 3,4,5-trisphosphate
(PtdIns(3,4,5)P3). It is ubiquitously expressed and
preferentially active on Cdc42. This subgroup also
contains closely related ARHGAP8. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 195
Score = 45.0 bits (107), Expect = 1e-06
Identities = 31/96 (32%), Positives = 44/96 (45%), Gaps = 11/96 (11%)
Query: 17 FGVPLLVNIQKTGY--ALPKFIISSFEWLINNASDQIGIFRKPG----VKTRIQKLREMA 70
FGV L +K +P + + E+L +A GIFR+ VK +Q+ M
Sbjct: 6 FGVSLQFLKEKNPEQEPIPPVVRETVEYLQAHALTTEGIFRRSANTQVVK-EVQQKYNMG 64
Query: 71 DEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTN 106
+ VDF D A ++K + RELPE LLT
Sbjct: 65 EPVDFD-QYEDVHLP---AVILKTFLRELPEPLLTF 96
>gnl|CDD|239857 cd04392, RhoGAP_ARHGAP19, RhoGAP_ARHGAP19: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP19-like proteins. The function of ArhGAP19 is
unknown. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 208
Score = 44.4 bits (105), Expect = 2e-06
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 3/69 (4%)
Query: 40 FEWLINNASDQIGIFRKPGVKTRIQKLREMADE-VDFKLDEVDSQQAYDVADLVKQYFRE 98
E+L N + G+FRKPG R Q+LR++ + D L+ A+D A ++K + E
Sbjct: 17 IEYLEKNLRVE-GLFRKPGNSARQQELRDLLNSGTDLDLESGGFH-AHDCATVLKGFLGE 74
Query: 99 LPEVLLTNK 107
LPE LLT+
Sbjct: 75 LPEPLLTHA 83
>gnl|CDD|239843 cd04378, RhoGAP_GMIP_PARG1, RhoGAP_GMIP_PARG1: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of GMIP (Gem interacting protein) and
PARG1 (PTPL1-associated RhoGAP1). GMIP plays important
roles in neurite growth and axonal guidance, and
interacts with Gem, a member of the RGK subfamily of the
Ras small GTPase superfamily, through the N-terminal
half of the protein. GMIP contains a C-terminal RhoGAP
domain. GMIP inhibits RhoA function, but is inactive
towards Rac1 and Cdc41. PARG1 interacts with Rap2, also
a member of the Ras small GTPase superfamily whose exact
function is unknown, and shows strong preference for
Rho. Small GTPases cluster into distinct families, and
all act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 203
Score = 43.2 bits (102), Expect = 6e-06
Identities = 22/71 (30%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 45 NNASDQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLL 104
N A GI+R G K R++KL + A E L E+ +D++ ++K + R+LPE L+
Sbjct: 29 NRALGVQGIYRVSGSKARVEKLCQ-AFENGKDLVELSELSPHDISSVLKLFLRQLPEPLI 87
Query: 105 TNKSSETFMSI 115
+ F+++
Sbjct: 88 LFRLYNDFIAL 98
>gnl|CDD|239848 cd04383, RhoGAP_srGAP, RhoGAP_srGAP: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain present
in srGAPs. srGAPs are components of the intracellular
part of Slit-Robo signalling pathway that is important
for axon guidance and cell migration. srGAPs contain an
N-terminal FCH domain, a central RhoGAP domain and a
C-terminal SH3 domain; this SH3 domain interacts with
the intracellular proline-rich-tail of the Roundabout
receptor (Robo). This interaction with Robo then
activates the rhoGAP domain which in turn inhibits Cdc42
activity. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 188
Score = 42.4 bits (100), Expect = 1e-05
Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 1/104 (0%)
Query: 15 SVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVD 74
+F L IQ +G A+P + S ++ GIFR G + + ++ + +
Sbjct: 1 KLFNGSLEEYIQDSGQAIPLVVESCIRFINLYGLQHQGIFRVSGSQVEVNDIKNAFERGE 60
Query: 75 FKLDEVDSQQAYD-VADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
L + + + VA ++K YFR L L + E MS +
Sbjct: 61 DPLADDQNDHDINSVAGVLKLYFRGLENPLFPKERFEDLMSCVK 104
>gnl|CDD|239873 cd04408, RhoGAP_GMIP, RhoGAP_GMIP: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain of GMIP (Gem
interacting protein). GMIP plays important roles in
neurite growth and axonal guidance, and interacts with
Gem, a member of the RGK subfamily of the Ras small
GTPase superfamily, through the N-terminal half of the
protein. GMIP contains a C-terminal RhoGAP domain. GMIP
inhibits RhoA function, but is inactive towards Rac1 and
Cdc41. Small GTPases cluster into distinct families, and
all act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 200
Score = 41.3 bits (97), Expect = 3e-05
Identities = 25/99 (25%), Positives = 48/99 (48%), Gaps = 1/99 (1%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVDFK 76
FGV + +P ++ + N A GI+R G K R++KL + A E
Sbjct: 1 FGVDFSQLPRDFPEEVPFVVVRCTAEIENRALGVQGIYRISGSKARVEKLCQ-AFENGRD 59
Query: 77 LDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMSI 115
L ++ +D+ ++K + +ELPE +L + + F+++
Sbjct: 60 LVDLSGHSPHDITSVLKHFLKELPEPVLPFQLYDDFIAL 98
>gnl|CDD|239867 cd04402, RhoGAP_ARHGAP20, RhoGAP_ARHGAP20: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP20-like proteins. ArhGAP20, also known as KIAA1391
and RA-RhoGAP, contains a RhoGAP, a RA, and a PH domain,
and ANXL repeats. ArhGAP20 is activated by Rap1 and
induces inactivation of Rho, which in turn leads to
neurite outgrowth. Small GTPases cluster into distinct
families, and all act as molecular switches, active in
their GTP-bound form but inactive when GDP-bound. The
Rho family of GTPases activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell proliferation
and the JNK signaling pathway. GTPases generally have a
low intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 192
Score = 40.7 bits (96), Expect = 3e-05
Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 10/101 (9%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD---EV 73
FG PL NI + LPK I+ L GIFR+ ++L+E + EV
Sbjct: 2 FGQPL-SNICEDD-NLPKPILDMLSLLYQKGPSTEGIFRRSANAKACKELKEKLNSGVEV 59
Query: 74 DFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETFMS 114
D K ++ +A ++K + R +P LL++ E +MS
Sbjct: 60 DLK-----AEPVLLLASVLKDFLRNIPGSLLSSDLYEEWMS 95
>gnl|CDD|239860 cd04395, RhoGAP_ARHGAP21, RhoGAP_ARHGAP21: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP21-like proteins. ArhGAP21 is a multi-domain
protein, containing RhoGAP, PH and PDZ domains, and is
believed to play a role in the organization of the
cell-cell junction complex. It has been shown to
function as a GAP of Cdc42 and RhoA, and to interact
with alpha-catenin and Arf6. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 196
Score = 40.1 bits (94), Expect = 7e-05
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 8/70 (11%)
Query: 49 DQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQ-----AYDVADLVKQYFRELPEVL 103
+ +GI+R PG I L+E E++ ++D Q V+ L+K +FR+LPE L
Sbjct: 35 ETVGIYRVPGNNAAISALQE---ELNRGGFDIDLQDPRWRDVNVVSSLLKSFFRKLPEPL 91
Query: 104 LTNKSSETFM 113
TN+ F+
Sbjct: 92 FTNELYPDFI 101
>gnl|CDD|239874 cd04409, RhoGAP_PARG1, RhoGAP_PARG1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
PARG1 (PTPL1-associated RhoGAP1). PARG1 was originally
cloned as an interaction partner of PTPL1, an
intracellular protein-tyrosine phosphatase. PARG1
interacts with Rap2, also a member of the Ras small
GTPase superfamily whose exact function is unknown, and
shows strong preference for Rho. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 211
Score = 39.8 bits (93), Expect = 9e-05
Identities = 20/53 (37%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 52 GIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLL 104
GI+R G K+R++KL + A E L E+ +D+++++K Y R+LPE L+
Sbjct: 36 GIYRVNGAKSRVEKLCQ-AFENGKDLVELSELSPHDISNVLKLYLRQLPEPLI 87
>gnl|CDD|239861 cd04396, RhoGAP_fSAC7_BAG7, RhoGAP_fSAC7_BAG7: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of fungal SAC7 and BAG7-like proteins.
Both proteins are GTPase activating proteins of Rho1,
but differ functionally in vivo: SAC7, but not BAG7, is
involved in the control of Rho1-mediated activation of
the PKC-MPK1 pathway. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 225
Score = 39.3 bits (92), Expect = 1e-04
Identities = 34/131 (25%), Positives = 54/131 (41%), Gaps = 24/131 (18%)
Query: 16 VFGVPLLVNIQ----------------KTGYALPKFIISSFEWLINNASDQIGIFRKPGV 59
VFGV L +++ GY +P + +L NA++ GIFR G
Sbjct: 1 VFGVSLEESLKYASVAISIVDEDGEQYVYGY-IPVVVAKCGVYLKENATEVEGIFRVAGS 59
Query: 60 KTRIQKLREMADE-VDF--KLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSETF---M 113
RI++L+ + D+ D D +D A ++++Y LPE L+ E F +
Sbjct: 60 SKRIRELQLIFSTPPDYGKSFDW-DGYTVHDAASVLRRYLNNLPEPLVPLDLYEEFRNPL 118
Query: 114 SIFQPIYMYHK 124
I Y K
Sbjct: 119 RKRPRILQYMK 129
>gnl|CDD|239871 cd04406, RhoGAP_myosin_IXA, RhoGAP_myosin_IXA: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain present in myosins IXA. Class IX myosins
contain a characteristic head domain, a neck domain and
a tail domain which contains a C6H2-zinc binding motif
and a Rho-GAP domain. Class IX myosins are
single-headed, processive myosins that are partly
cytoplasmic, and partly associated with membranes and
the actin cytoskeleton. Class IX myosins are implicated
in the regulation of neuronal morphogenesis and function
of sensory systems, like the inner ear. There are two
major isoforms, myosin IXA and IXB with several splice
variants, which are both expressed in developing
neurons. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 186
Score = 38.8 bits (90), Expect = 2e-04
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 1/62 (1%)
Query: 52 GIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSSET 111
GI+RK G +I++LR+ D D +D + +A + KQ+ R+LP L+T + E
Sbjct: 35 GIYRKSGSTNKIKELRQGLD-TDANSVNLDDYNIHVIASVFKQWLRDLPNPLMTFELYEE 93
Query: 112 FM 113
F+
Sbjct: 94 FL 95
>gnl|CDD|239872 cd04407, RhoGAP_myosin_IXB, RhoGAP_myosin_IXB: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain present in myosins IXB. Class IX myosins
contain a characteristic head domain, a neck domain and
a tail domain which contains a C6H2-zinc binding motif
and a Rho-GAP domain. Class IX myosins are
single-headed, processive myosins that are partly
cytoplasmic, and partly associated with membranes and
the actin cytoskeleton. Class IX myosins are implicated
in the regulation of neuronal morphogenesis and function
of sensory systems, like the inner ear. There are two
major isoforms, myosin IXA and IXB with several splice
variants, which are both expressed in developing neurons
Small GTPases cluster into distinct families, and all
act as molecular switches, active in their GTP-bound
form but inactive when GDP-bound. The Rho family of
GTPases activates effectors involved in a wide variety
of developmental processes, including regulation of
cytoskeleton formation, cell proliferation and the JNK
signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 186
Score = 38.8 bits (90), Expect = 2e-04
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 5/64 (7%)
Query: 52 GIFRKPGVKTRIQKLREM--ADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKSS 109
GI+RK G R+++L ++ AD + KL+ + + L+KQ+ RELPE L+T
Sbjct: 35 GIYRKSGSANRMKELHQLLQADPENVKLENY---PIHAITGLLKQWLRELPEPLMTFAQY 91
Query: 110 ETFM 113
F+
Sbjct: 92 NDFL 95
>gnl|CDD|239855 cd04390, RhoGAP_ARHGAP22_24_25, RhoGAP_ARHGAP22_24_25:
GTPase-activator protein (GAP) domain for Rho-like
GTPases found in ARHGAP22, 24 and 25-like proteins;
longer isoforms of these proteins contain an additional
N-terminal pleckstrin homology (PH) domain. ARHGAP25
(KIA0053) has been identified as a GAP for Rac1 and
Cdc42. Short isoforms (without the PH domain) of
ARHGAP24, called RC-GAP72 and p73RhoGAP, and of
ARHGAP22, called p68RacGAP, has been shown to be
involved in angiogenesis and endothelial cell capillary
formation. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 199
Score = 38.6 bits (90), Expect = 2e-04
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 49 DQIGIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNKS 108
+ G+FR PG +++L++ D + + D+ + VA L+K Y RELPE ++
Sbjct: 39 KEEGLFRLPGQANLVKQLQDAFDAGERPSFDSDTD-VHTVASLLKLYLRELPEPVIPWAQ 97
Query: 109 SETFMS 114
E F+S
Sbjct: 98 YEDFLS 103
>gnl|CDD|239868 cd04403, RhoGAP_ARHGAP27_15_12_9, RhoGAP_ARHGAP27_15_12_9:
GTPase-activator protein (GAP) domain for Rho-like
GTPases found in ARHGAP27 (also called CAMGAP1),
ARHGAP15, 12 and 9-like proteins; This subgroup of
ARHGAPs are multidomain proteins that contain RhoGAP,
PH, SH3 and WW domains. Most members that are studied
show GAP activity towards Rac1, some additionally show
activity towards Cdc42. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 187
Score = 38.1 bits (89), Expect = 3e-04
Identities = 29/90 (32%), Positives = 41/90 (45%), Gaps = 1/90 (1%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMAD-EVDF 75
FG L Q+ +PKF+ E + D GI+R G IQKLR D +
Sbjct: 1 FGCHLEALCQRENSTVPKFVRLCIEAVEKRGLDVDGIYRVSGNLAVIQKLRFAVDHDEKL 60
Query: 76 KLDEVDSQQAYDVADLVKQYFRELPEVLLT 105
LD+ + + + +K +FRELPE L
Sbjct: 61 DLDDSKWEDIHVITGALKLFFRELPEPLFP 90
>gnl|CDD|239839 cd04374, RhoGAP_Graf, RhoGAP_Graf: GTPase-activator protein (GAP)
domain for Rho-like GTPases found in GRAF (GTPase
regulator associated with focal adhesion kinase); Graf
is a multi-domain protein, containing SH3 and PH
domains, that binds focal adhesion kinase and influences
cytoskeletal changes mediated by Rho proteins. Graf
exhibits GAP activity toward RhoA and Cdc42, but only
weakly activates Rac1. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 203
Score = 37.4 bits (87), Expect = 6e-04
Identities = 18/62 (29%), Positives = 31/62 (50%), Gaps = 11/62 (17%)
Query: 52 GIFRKPGVKTRIQKL------REMAD--EVDFKLDEVDSQQAYDVADLVKQYFRELPEVL 103
G++R GV +++QKL + + +VD E + + + +K Y R LPE L
Sbjct: 48 GLYRVVGVNSKVQKLLSLGLDPKTSTPGDVDLDNSEWEIKT---ITSALKTYLRNLPEPL 104
Query: 104 LT 105
+T
Sbjct: 105 MT 106
>gnl|CDD|239854 cd04389, RhoGAP_KIAA1688, RhoGAP_KIAA1688: GTPase-activator protein
(GAP) domain for Rho-like GTPases found in KIAA1688-like
proteins; KIAA1688 is a protein of unknown function that
contains a RhoGAP domain and a myosin tail homology 4
(MyTH4) domain. Small GTPases cluster into distinct
families, and all act as molecular switches, active in
their GTP-bound form but inactive when GDP-bound. The
Rho family of GTPases activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell proliferation
and the JNK signaling pathway. GTPases generally have a
low intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 187
Score = 36.6 bits (85), Expect = 0.001
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 52 GIFRKPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLL 104
GIFR PG + +L+ D+ D+ L ++ + A L+K + REL E L+
Sbjct: 42 GIFRVPGDIDEVNELKLRVDQWDYPLSGLED--PHVPASLLKLWLRELEEPLI 92
>gnl|CDD|239844 cd04379, RhoGAP_SYD1, RhoGAP_SYD1: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain present in
SYD-1_like proteins. Syd-1, first identified and best
studied in C.elegans, has been shown to play an
important role in neuronal development by specifying
axonal properties. Small GTPases cluster into distinct
families, and all act as molecular switches, active in
their GTP-bound form but inactive when GDP-bound. The
Rho family of GTPases activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell proliferation
and the JNK signaling pathway. GTPases generally have a
low intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 207
Score = 35.1 bits (81), Expect = 0.004
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 6/94 (6%)
Query: 17 FGVPL--LVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADEVD 74
FGVPL LV + +P + + + D IG++R G + ++LR+ A E +
Sbjct: 1 FGVPLSRLVEREGESRDVPIVLQKCVQEIERRGLDVIGLYRLCGSAAKKKELRD-AFERN 59
Query: 75 FKLDEVDSQQAYDV---ADLVKQYFRELPEVLLT 105
E+ + D+ ++K Y RELPE L+T
Sbjct: 60 SAAVELSEELYPDINVITGVLKDYLRELPEPLIT 93
>gnl|CDD|239838 cd04373, RhoGAP_p190, RhoGAP_p190: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain of p190-like
proteins. p190, also named RhoGAP5, plays a role in
neuritogenesis and axon branch stability. p190 shows a
preference for Rho, over Rac and Cdc42, and consists of
an N-terminal GTPase domain and a C-terminal GAP domain.
The central portion of p190 contains important
regulatory phosphorylation sites. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 185
Score = 33.2 bits (76), Expect = 0.018
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 3/89 (3%)
Query: 17 FGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKLREMADE-VDF 75
FGVPL N+ + +P F+ E++ + GI+R G KT + L++ D+ +
Sbjct: 1 FGVPL-ANVVTSEKPIPIFLEKCVEFIEATGLETEGIYRVSGNKTHLDSLQKQFDQDHNL 59
Query: 76 KLDEVDSQQAYDVADLVKQYFRELPEVLL 104
L D VA +K +F ELP+ L+
Sbjct: 60 DLVSKDF-TVNAVAGALKSFFSELPDPLI 87
>gnl|CDD|234953 PRK01406, gltX, glutamyl-tRNA synthetase; Reviewed.
Length = 476
Score = 31.2 bits (72), Expect = 0.087
Identities = 13/48 (27%), Positives = 23/48 (47%)
Query: 57 PGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLL 104
P +K R + L+E+A+ F ++ +K+ RE+ E LL
Sbjct: 360 PLLKERAKTLKELAELARFFFEDFPEYDEDAAKKHLKEVAREVLEALL 407
>gnl|CDD|239847 cd04382, RhoGAP_MgcRacGAP, RhoGAP_MgcRacGAP: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain present in MgcRacGAP proteins. MgcRacGAP
plays an important dual role in cytokinesis: i) it is
part of centralspindlin-complex, together with the
mitotic kinesin MKLP1, which is critical for the
structure of the central spindle by promoting microtuble
bundling. ii) after phosphorylation by aurora B
MgcRacGAP becomes an effective regulator of RhoA and
plays an important role in the assembly of the
contractile ring and the initiation of cytokinesis.
MgcRacGAP-like proteins contain a N-terminal C1-like
domain, and a C-terminal RhoGAP domain. Small GTPases
cluster into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific groups
of GAPs that enhance the rate of GTP hydrolysis by
several orders of magnitude.
Length = 193
Score = 30.0 bits (68), Expect = 0.24
Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 5/67 (7%)
Query: 50 QIGIFRKPGVKTRIQKLRE--MADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVLLTNK 107
+ G++R G + ++ L+E + + L +VD + + +K + R L E L+T
Sbjct: 35 EEGLYRVSGSEREVKALKEKFLRGKTVPNLSKVD---IHVICGCLKDFLRSLKEPLITFA 91
Query: 108 SSETFMS 114
+ FM
Sbjct: 92 LWKEFME 98
>gnl|CDD|184785 PRK14668, uvrC, excinuclease ABC subunit C; Provisional.
Length = 577
Score = 27.8 bits (62), Expect = 1.8
Identities = 11/34 (32%), Positives = 24/34 (70%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVKQY 95
RI+++ E AD++DF + + ++Q A+L+K++
Sbjct: 51 RIRRMVERADDIDFAVTDTETQALLLEANLIKRH 84
>gnl|CDD|232912 TIGR00306, apgM, 2,3-bisphosphoglycerate-independent
phosphoglycerate mutase, archaeal form. Experimentally
characterized in archaea as
2,3-bisphosphoglycerate-independent phosphoglycerate
mutase. This model describes a set of proteins in the
Archaea (two each in Methanococcus jannaschii,
Methanobacterium thermoautotrophicum, and Archaeoglobus
fulgidus) and in Aquifex aeolicus (1 member) [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 396
Score = 27.4 bits (61), Expect = 2.1
Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 53 IFRKPGVKTRIQKL--REMADEVDFKLDEVDSQQAYDVADLVKQYFRELPEVL 103
+ R PG+ ++ +++ +V L S++A A+L+ + E EVL
Sbjct: 146 VIRGPGLSDKVSDNDPKDIGKKVKAILPLAGSEEAKKTAELLNELMLESAEVL 198
>gnl|CDD|183697 PRK12714, flgK, flagellar hook-associated protein FlgK;
Provisional.
Length = 624
Score = 27.6 bits (61), Expect = 2.1
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 7/56 (12%)
Query: 44 INNASDQIGIFR---KPGVKTRIQKLREMADEVDFKLDEVDSQQAYDVADLVKQYF 96
+ +DQ+ I R G +R+Q+L +++ V D + S A +VA L +F
Sbjct: 62 VGRVADQLAISRLLDSGGELSRLQQLSSLSNRV----DALYSNTATNVAGLWSNFF 113
>gnl|CDD|233251 TIGR01054, rgy, reverse gyrase. This model describes reverse
gyrase, found in both archaeal and bacterial
thermophiles. This enzyme, a fusion of a type I
topoisomerase domain and a helicase domain, introduces
positive supercoiling to increase the melting
temperature of DNA double strands. Generally, these
gyrases are encoded as a single polypeptide. An
exception was found in Methanopyrus kandleri, where
enzyme is split within the topoisomerase domain,
yielding a heterodimer of gene products designated RgyB
and RgyA [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1171
Score = 27.5 bits (61), Expect = 2.3
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 60 KTRIQKLREMADEVDFKL-----DEVDSQQAYDVADLVKQY 95
K+ I+ LRE+A EVD D + +D+A L+ Y
Sbjct: 707 KSIIEILRELAHEVDEVFIGTDPDTEGEKIGWDLALLLSPY 747
>gnl|CDD|189048 cd09878, PIN_VirB11L-ATPase, PIN domain of the Methanocaldococcus
Jannaschii Dsm 2661 protein, Thermococcus sibiricus MM
739 predicted ATPase, and other similar archaeal
homologs. PIN (PilT N terminus) domain present
N-terminal of AAA+, VirB11-like ATPases, as well as, the
PIN domains of proteins from Methanopyrus kandleri AV19
and Thermococcus sibiricus MM 739, and other similar
archaeal homologs are included in this family. Several
members of this subfamily possess an AAA+, VirB11-like
ATPase domain, flanked by PIN and KH nucleic
acid-binding domains. VirB11-ATPase is a type IV
secretory pathway component required for T-pilus
biogenesis and virulence. These PIN domains are
structural homologs of flap endonuclease-1 (FEN1)-like
PIN domains, but lack the extensive arch/clamp region
and the H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domains within this subgroup contain four
highly conserved acidic residues (putative
metal-binding, active site residues) which cluster at
the C-terminal end of the beta-sheet and form a
negatively charged pocket near the center of the
molecule.
Length = 124
Score = 26.5 bits (59), Expect = 2.9
Identities = 14/52 (26%), Positives = 30/52 (57%), Gaps = 9/52 (17%)
Query: 63 IQKLREMADE----VDF-----KLDEVDSQQAYDVADLVKQYFRELPEVLLT 105
++KLR++ADE V+F +L+E+ + ++ ++++ RE L+T
Sbjct: 54 LRKLRDLADEGIITVEFVGERPRLEEIKLAKGGEIDAMIREVARENGATLVT 105
>gnl|CDD|224600 COG1686, DacC, D-alanyl-D-alanine carboxypeptidase [Cell envelope
biogenesis, outer membrane].
Length = 389
Score = 27.0 bits (60), Expect = 3.3
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 85 AYDVADLVKQYFRELPEVL-LTNKSSETF 112
A D+A L + R+ PE+ +++ S TF
Sbjct: 178 ARDLALLARALIRDYPEIYEISSTKSFTF 206
>gnl|CDD|239864 cd04399, RhoGAP_fRGD2, RhoGAP_fRGD2: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
fungal RGD2-like proteins. Yeast Rgd2 is a GAP protein
for Cdc42 and Rho5. Small GTPases cluster into distinct
families, and all act as molecular switches, active in
their GTP-bound form but inactive when GDP-bound. The
Rho family of GTPases activates effectors involved in a
wide variety of developmental processes, including
regulation of cytoskeleton formation, cell proliferation
and the JNK signaling pathway. GTPases generally have a
low intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 212
Score = 26.5 bits (59), Expect = 4.1
Identities = 13/56 (23%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 65 KLREMADEVDFKLDEVDSQQAYD---VADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+LR + ++ EV + ++ VA ++K Y ELP+ L+ + + S++
Sbjct: 55 QLRNLLNKPKKPDKEVIILKKFEPSTVASVLKLYLLELPDSLIPHDIYDLIRSLYS 110
>gnl|CDD|147573 pfam05461, ApoL, Apolipoprotein L. Apo L belongs to the high
density lipoprotein family that plays a central role in
cholesterol transport. The cholesterol content of
membranes is important in cellular processes such as
modulating gene transcription and signal transduction
both in the adult brain and during neurodevelopment.
There are six apo L genes located in close proximity to
each other on chromosome 22q12 in humans. 22q12 is a
confirmed high-susceptibility locus for schizophrenia
and close to the region associated with
velocardiofacial syndrome that includes symptoms of
schizophrenia.
Length = 313
Score = 26.5 bits (59), Expect = 4.1
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 55 RKPGVKTRIQKLREMADEVD 74
K ++ I+KLR +AD+VD
Sbjct: 70 LKAELEEHIRKLRALADQVD 89
>gnl|CDD|200311 TIGR03687, pupylate_cterm, ubiquitin-like protein Pup. Members
of this protein family are Pup, a small protein whose
ligation to target proteins steers them toward
degradation. This protein family occurs in a number of
bacteria, especially Actinobacteria such as
Mycobacterium tuberculosis, that possess an
archeal-type proteasome. All members of this protein
family known during model construction end with the
C-terminal motif [FY][VI]QKGG[QE]. Ligation is thought
to occur between the C-terminal COOH of Pup and an
epsilon-amino group of a Lys on the target protein. The
N-terminal half of this protein is poorly conserved and
not represented in the seed alignment [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 33
Score = 23.9 bits (52), Expect = 5.8
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 70 ADEVDFKLDEVDSQQAYDVADLVKQY 95
+ VD LDE+D + + V+ +
Sbjct: 2 TEGVDDLLDEIDDVLETNAEEFVRGF 27
>gnl|CDD|239435 cd03319, L-Ala-DL-Glu_epimerase, L-Ala-D/L-Glu epimerase catalyzes
the epimerization of L-Ala-D/L-Glu and other dipeptides.
The genomic context and the substrate specificity of
characterized members of this family from E.coli and
B.subtilis indicates a possible role in the metabolism
of the murein peptide of peptidoglycan, of which
L-Ala-D-Glu is a component. L-Ala-D/L-Glu epimerase is a
member of the enolase-superfamily, which is
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 316
Score = 26.0 bits (58), Expect = 5.9
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 62 RIQKLREMADEVDFKLDEVDSQQAYDVADLVK--QYFRELP 100
RI+ +RE A + + VD+ Q + + V+ + EL
Sbjct: 167 RIRAIREAAPDARLR---VDANQGWTPEEAVELLRELAELG 204
>gnl|CDD|239870 cd04405, RhoGAP_BRCC3-like, RhoGAP_BRCC3-like: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of BRCC3-like proteins. This subgroup
also contains two groups of closely related proteins,
BRCC3 and DEPDC7, which both contain a C-terminal
RhoGAP-like domain and an N-terminal DEP (Disheveled,
Egl-10, and Pleckstrin) domain. The function(s) of
BRCC3 and DEPDC7 are unknown. Small GTPases cluster into
distinct families, and all act as molecular switches,
active in their GTP-bound form but inactive when
GDP-bound. The Rho family of GTPases activates effectors
involved in a wide variety of developmental processes,
including regulation of cytoskeleton formation, cell
proliferation and the JNK signaling pathway. GTPases
generally have a low intrinsic GTPase hydrolytic
activity but there are family-specific groups of GAPs
that enhance the rate of GTP hydrolysis by several
orders of magnitude.
Length = 235
Score = 25.8 bits (57), Expect = 6.0
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 87 DVADLVKQYFRELPEVLLTNKSSETFMSIFQ 117
+ + +Y+ +L E LLT + F+ I +
Sbjct: 107 LLFKTIAKYYGQLKEPLLTFHLFDIFVGILE 137
>gnl|CDD|130918 TIGR01859, fruc_bis_ald_, fructose-1,6-bisphosphate aldolase,
class II, various bacterial and amitochondriate
protist. This model represents of one of several
subtypes of the class II fructose-1,6-bisphosphate
aldolase, an enzyme of glycolysis. The subtypes are
split into several models to allow separation of a
family of tagatose bisphosphate aldolases. This form is
found in Gram-positive bacteria, a variety of
Gram-negative, and in amitochondriate protists. The
class II enzymes share homology with tagatose
bisphosphate aldolase but not with class I aldolase
[Energy metabolism, Glycolysis/gluconeogenesis].
Length = 282
Score = 25.8 bits (57), Expect = 6.3
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 16 VFGVPLLVNIQKTGYALPKFIISSFEWL 43
V G +L +K GYA+ F ++ EW
Sbjct: 2 VNGKEILQKAKKEGYAVGAFNFNNLEWT 29
>gnl|CDD|173781 cd03361, TOPRIM_TopoIA_RevGyr, TopoIA_RevGyr : The
topoisomerase-primase (TORPIM) domain found in members
of the type IA family of DNA topoisomerases (Topo IA)
similar to the ATP-dependent reverse gyrase found in
archaea and thermophilic bacteria. Type IA DNA
topoisomerases remove (relax) negative supercoils in the
DNA by: cleaving one strand of the DNA duplex,
covalently linking to the 5' phosphoryl end of the DNA
break and, allowing the other strand of the duplex to
pass through the gap. Reverse gyrase is also able to
insert positive supercoils in the presence of ATP and
negative supercoils in the presence of AMPPNP. The
TOPRIM domain has two conserved motifs, one of which
centers at a conserved glutamate and the other one at
two conserved aspartates (DxD). For topoisomerases the
conserved glutamate is believed to act as a general base
in strand joining and, as a general acid in strand
cleavage. The DXD motif may co-ordinate Mg2+, a cofactor
required for full catalytic function.
Length = 170
Score = 25.7 bits (57), Expect = 6.5
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 60 KTRIQKLREMADEVDFKL-----DEVDSQQAYDVADLVKQYFREL 99
++ LRE+A EVD L D + A+DV ++ Y + +
Sbjct: 106 LETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNI 150
>gnl|CDD|130917 TIGR01858, tag_bisphos_ald, class II aldolase, tagatose
bisphosphate family. This model describes
tagatose-1,6-bisphosphate aldolases, and perhaps other
closely related class II aldolases. This tetrameric,
Zn2+-dependent enzyme is related to the class II
fructose bisphosphate aldolase; fructose
1,6-bisphosphate and tagatose 1,6 bisphosphate differ
only in chirality at C4.
Length = 282
Score = 25.6 bits (56), Expect = 7.2
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 21 LLVNIQKTGYALPKFIISSFE 41
+L + Q GYA+P F I + E
Sbjct: 7 MLQDAQAGGYAVPAFNIHNLE 27
>gnl|CDD|233883 TIGR02475, CobW, cobalamin biosynthesis protein CobW. The family
of proteins identified by this model is generally found
proximal to the trimeric cobaltochelatase subunit CobN
which is essential for vitamin B12 (cobalamin)
biosynthesis. The protein contains an P-loop
nucleotide-binding loop in the N-terminal domain and a
histidine-rich region in the C-terminal portion
suggesting a role in metal binding, possibly as an
intermediary between the cobalt transport and chelation
systems. A broader CobW family is delineated by two PFAM
models which identify the N- and C-terminal domains
(pfam02492 and pfam07683) [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 341
Score = 25.9 bits (57), Expect = 7.6
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 25 IQKTGYALPKFIISSFEW 42
I+ +G ALPK ++ +F+W
Sbjct: 98 IETSGLALPKPLVQAFQW 115
>gnl|CDD|234905 PRK01122, PRK01122, potassium-transporting ATPase subunit B;
Provisional.
Length = 679
Score = 25.9 bits (58), Expect = 7.6
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 56 KPGVKTRIQKLREM 69
KPG+K R +LR+M
Sbjct: 447 KPGIKERFAELRKM 460
>gnl|CDD|176004 cd04039, C2_PSD, C2 domain present in Phosphatidylserine
decarboxylase (PSD). PSD is involved in the
biosynthesis of aminophospholipid by converting
phosphatidylserine (PtdSer) to phosphatidylethanolamine
(PtdEtn). There is a single C2 domain present and it is
thought to confer PtdSer binding motif that is common
to PKC and synaptotagmin. 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 = 108
Score = 24.9 bits (55), Expect = 7.9
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 14 NSVFGVPLLVNIQKTGYALPKFIISSF 40
S+ +P L N+ +TG+ + F+I SF
Sbjct: 8 KSITDLPPLKNMTRTGFDMDPFVIISF 34
>gnl|CDD|226824 COG4389, COG4389, Site-specific recombinase [DNA replication,
recombination, and repair].
Length = 677
Score = 25.6 bits (56), Expect = 8.0
Identities = 8/27 (29%), Positives = 11/27 (40%)
Query: 82 SQQAYDVADLVKQYFRELPEVLLTNKS 108
S + Y L + R L + NKS
Sbjct: 309 SVEQYSTRHLRRSSIRMLARSITENKS 335
>gnl|CDD|237791 PRK14701, PRK14701, reverse gyrase; Provisional.
Length = 1638
Score = 25.6 bits (56), Expect = 8.8
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 10/98 (10%)
Query: 7 FHHFKNNNSVFGVPLLVNIQKTGYALPKFIISSFEWLINNASDQIGIFRKPGVKTRIQKL 66
FH NN++F +P+ +I++ +F +W + G K I+ +
Sbjct: 640 FHGVLINNNLF-IPIYDSIKRCRDCGHQFT----DWEDKGVCPRCGSKNVDDAKENIKAM 694
Query: 67 REMADEVDFKL-----DEVDSQQAYDVADLVKQYFREL 99
RE+A EVD L D + A+D+ +++ Y +
Sbjct: 695 RELAHEVDEILIGTDPDTEGEKIAWDIRNVLAPYGPNI 732
>gnl|CDD|239005 cd02050, C1_inh, C1 inhibitor (C1-Inh) is a protease inhibitor of
the serpin family. It plays a pivotal role in regulating
the activation of the classical complement pathway and
of the contact system, via regulating bradykinin
formation, inhibiting factor XII and kallikrein of the
contact system, and via acting on factor XI in the
coagulation cascade. This subgroup corresponds to clade
G of the serpin superfamily.
Length = 352
Score = 25.6 bits (56), Expect = 9.0
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 2 TKKTKFHHFKNNNSVFGVPLL 22
TK T FK N VP++
Sbjct: 162 TKHTVLLPFKRNGDPVKVPVM 182
>gnl|CDD|225126 COG2216, KdpB, High-affinity K+ transport system, ATPase chain B
[Inorganic ion transport and metabolism].
Length = 681
Score = 25.7 bits (57), Expect = 9.4
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 56 KPGVKTRIQKLREM 69
KPG+K R +LR+M
Sbjct: 449 KPGIKERFAELRKM 462
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
0.321 0.136 0.393
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,279,128
Number of extensions: 550696
Number of successful extensions: 761
Number of sequences better than 10.0: 1
Number of HSP's gapped: 726
Number of HSP's successfully gapped: 83
Length of query: 124
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 39
Effective length of database: 7,167,512
Effective search space: 279532968
Effective search space used: 279532968
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.1 bits)