RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16474
(264 letters)
>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 = 137 bits (346), Expect = 5e-40
Identities = 62/104 (59%), Positives = 70/104 (67%), Gaps = 1/104 (0%)
Query: 161 KPMFCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAH 220
KP+F PLEEHL G +IA PIE C L + GM+EEGLFRV GGASK+KRLK LDA
Sbjct: 2 KPVFGTPLEEHLKRTGREIALPIEACVMCLLETGMNEEGLFRVGGGASKLKRLKAALDAG 61
Query: 221 CIKFEDALEY-DAHVLAGVLKLYLRELPEPLLTYALYEDWLAAA 263
Y D H +A LK YLRELP+PLLTY LYEDW+ AA
Sbjct: 62 TFSLPLDEFYSDPHAVASALKSYLRELPDPLLTYNLYEDWVQAA 105
Score = 36.7 bits (85), Expect = 0.006
Identities = 16/26 (61%), Positives = 18/26 (69%)
Query: 78 KPMFCQPLEEHLALIGCKIAFPIELC 103
KP+F PLEEHL G +IA PIE C
Sbjct: 2 KPVFGTPLEEHLKRTGREIALPIEAC 27
>gnl|CDD|216027 pfam00620, RhoGAP, RhoGAP domain. GTPase activator proteins
towards Rho/Rac/Cdc42-like small GTPases.
Length = 152
Score = 100 bits (252), Expect = 1e-26
Identities = 40/84 (47%), Positives = 57/84 (67%)
Query: 181 FPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLK 240
+E C L + G+D EG+FRV+G AS++K L+ D+ D E D HV+A +LK
Sbjct: 2 LIVEKCVEFLEKRGLDTEGIFRVSGSASRIKELREAFDSGEDVDLDLEEEDVHVVASLLK 61
Query: 241 LYLRELPEPLLTYALYEDWLAAAR 264
L+LRELPEPLLT+ LYE+++ AA+
Sbjct: 62 LFLRELPEPLLTFELYEEFIEAAK 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 = 92.3 bits (230), Expect = 3e-23
Identities = 41/86 (47%), Positives = 58/86 (67%)
Query: 179 IAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGV 238
I +E C L + G+D EG++RV+G S+VK L+ D+ D EYD H +AG+
Sbjct: 3 IPIIVEKCIEYLEKRGLDTEGIYRVSGSKSRVKELRDAFDSGPDPDLDLSEYDVHDVAGL 62
Query: 239 LKLYLRELPEPLLTYALYEDWLAAAR 264
LKL+LRELPEPL+TY LYE+++ AA+
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 = 87.7 bits (218), Expect = 2e-21
Identities = 37/83 (44%), Positives = 55/83 (66%), Gaps = 1/83 (1%)
Query: 182 PIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKL 241
IE C L + G++ EG+FRV+G ASK++ LK D +D +YD H +A +LKL
Sbjct: 3 IIEKCIEYLEKNGLNTEGIFRVSGSASKIEELKKKFD-RGEDIDDLEDYDVHDVASLLKL 61
Query: 242 YLRELPEPLLTYALYEDWLAAAR 264
YLRELPEPL+ + LY++++ A+
Sbjct: 62 YLRELPEPLIPFELYDEFIELAK 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 = 70.9 bits (174), Expect = 5e-15
Identities = 37/105 (35%), Positives = 60/105 (57%), Gaps = 4/105 (3%)
Query: 164 FCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIK 223
F PLE+ + G + + C +A+ G++ EG++R++G S+V +LK D +
Sbjct: 1 FGVPLEDLILREGDNVPNIVYQCIQAIENFGLNLEGIYRLSGNVSRVNKLKELFDKDPLN 60
Query: 224 FE----DALEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
+ E D H +A +LKL+ RELPEPLLT AL +++ AA+
Sbjct: 61 VLLISPEDYESDIHSVASLLKLFFRELPEPLLTKALSREFIEAAK 105
>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 = 70.5 bits (173), Expect = 8e-15
Identities = 33/72 (45%), Positives = 47/72 (65%), Gaps = 5/72 (6%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCL--DAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLL 251
G+ EG++R +G A+K+K L+ L D + ED Y HV+ VLK +LRELPEPL+
Sbjct: 30 GLYTEGIYRKSGSANKIKELRQGLDTDPDSVNLED---YPIHVITSVLKQWLRELPEPLM 86
Query: 252 TYALYEDWLAAA 263
T+ LYE++L A
Sbjct: 87 TFELYENFLRAM 98
>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 = 69.0 bits (169), Expect = 3e-14
Identities = 37/82 (45%), Positives = 55/82 (67%), Gaps = 1/82 (1%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKLY 242
+E C + + G+ EEGLFR+ G A+ VK+L+ DA D+ + D H +A +LKLY
Sbjct: 26 VEQCVDFIREHGLKEEGLFRLPGQANLVKQLQDAFDAGERPSFDS-DTDVHTVASLLKLY 84
Query: 243 LRELPEPLLTYALYEDWLAAAR 264
LRELPEP++ +A YED+L+ A+
Sbjct: 85 LRELPEPVIPWAQYEDFLSCAQ 106
>gnl|CDD|153279 cd07595, BAR_RhoGAP_Rich-like, The Bin/Amphiphysin/Rvs (BAR) domain
of Rich-like Rho GTPase Activating Proteins. BAR
domains are dimerization, lipid binding and curvature
sensing modules found in many different proteins with
diverse functions. This subfamily is composed of Rho and
Rac GTPase activating proteins (GAPs) with similarity to
GAP interacting with CIP4 homologs proteins (Rich).
Members contain an N-terminal BAR domain, followed by a
Rho GAP domain, and a C-terminal prolin-rich region.
Vertebrates harbor at least three Rho GAPs in this
subfamily including Rich1, Rich2, and SH3-domain binding
protein 1 (SH3BP1). Rich1 and Rich2 play complementary
roles in the establishment and maintenance of cell
polarity. Rich1 is a Cdc42- and Rac-specific GAP that
binds to polarity proteins through the scaffold protein
angiomotin and plays a role in maintaining the integrity
of tight junctions. Rich2 is a Rac GAP that interacts
with CD317 and plays a role in actin cytoskeleton
organization and the maintenance of microvilli in
polarized epithelial cells. SH3BP1 is a Rac GAP that
inhibits Rac-mediated platelet-derived growth factor
(PDGF)-induced membrane ruffling. BAR domains form
dimers that bind to membranes, induce membrane bending
and curvature, and may also be involved in
protein-protein interactions. The BAR domain of Rich1
has been shown to form oligomers, bind membranes and
induce membrane tubulation.
Length = 244
Score = 68.9 bits (169), Expect = 7e-14
Identities = 31/68 (45%), Positives = 42/68 (61%)
Query: 21 EEDTLATEMYYIIARECEIAQVIVDYVHMQKKQHEEALLHLNETLPQLNSLILVNPMKPM 80
D LAT+MY +A+E EIA ++D + Q++ H AL L LP+L I +P KP+
Sbjct: 177 CRDALATDMYEFLAKEAEIASYLIDLIEAQREYHRTALSVLEAVLPELQEQIEQSPSKPV 236
Query: 81 FCQPLEEH 88
F QPLEEH
Sbjct: 237 FGQPLEEH 244
Score = 41.6 bits (98), Expect = 1e-04
Identities = 18/35 (51%), Positives = 21/35 (60%)
Query: 137 HEEALLHLNETLPQLNSLILVNPMKPMFCQPLEEH 171
H AL L LP+L I +P KP+F QPLEEH
Sbjct: 210 HRTALSVLEAVLPELQEQIEQSPSKPVFGQPLEEH 244
>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 = 67.4 bits (165), Expect = 1e-13
Identities = 31/81 (38%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLD-AHCIKFEDALEYDAHVLAGVLKL 241
+ LC A+ + G+D +G++RV+G + +++L+ +D + +D+ D HV+ G LKL
Sbjct: 20 VRLCIEAVEKRGLDVDGIYRVSGNLAVIQKLRFAVDHDEKLDLDDSKWEDIHVITGALKL 79
Query: 242 YLRELPEPLLTYALYEDWLAA 262
+ RELPEPL Y+L+ D++AA
Sbjct: 80 FFRELPEPLFPYSLFNDFVAA 100
>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 = 65.0 bits (159), Expect = 8e-13
Identities = 30/82 (36%), Positives = 41/82 (50%), Gaps = 2/82 (2%)
Query: 182 PIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKL 241
PI L Q G EG+FR + A K LK L++ D +LA VLK
Sbjct: 18 PILDMLSLLYQKGPSTEGIFRRSANAKACKELKEKLNSG--VEVDLKAEPVLLLASVLKD 75
Query: 242 YLRELPEPLLTYALYEDWLAAA 263
+LR +P LL+ LYE+W++A
Sbjct: 76 FLRNIPGSLLSSDLYEEWMSAL 97
>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 = 64.0 bits (156), Expect = 2e-12
Identities = 34/97 (35%), Positives = 54/97 (55%), Gaps = 23/97 (23%)
Query: 179 IAFPIELCT-----RALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFE------DA 227
+ F I+ CT RAL +G++RV+G ++V++L C FE +
Sbjct: 16 VPFIIKKCTSEIENRALGV-----QGIYRVSGSKARVEKL-------CQAFENGKDLVEL 63
Query: 228 LEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
E H ++ VLKL+LR+LPEPL+ + LY D++A A+
Sbjct: 64 SELSPHDISSVLKLFLRQLPEPLILFRLYNDFIALAK 100
>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 = 62.4 bits (152), Expect = 6e-12
Identities = 29/64 (45%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 197 EEGLFRVTGGASKVKRLKTCLDAH--CIKFEDALEYDAHVLAGVLKLYLRELPEPLLTYA 254
EEG+FR++G AS +K+LK + F +L D H +AG+LKLYLRELP +L
Sbjct: 41 EEGIFRLSGSASVIKQLKERFNTEYDVDLFSSSLYPDVHTVAGLLKLYLRELPTLILGGE 100
Query: 255 LYED 258
L+ D
Sbjct: 101 LHND 104
>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 = 61.3 bits (149), Expect = 1e-11
Identities = 34/107 (31%), Positives = 53/107 (49%), Gaps = 9/107 (8%)
Query: 163 MFCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCI 222
+F LEE++ G I +E C R + G+ +G+FRV+G +V +K +
Sbjct: 2 LFNGSLEEYIQDSGQAIPLVVESCIRFINLYGLQHQGIFRVSGSQVEVNDIKNAFE---- 57
Query: 223 KFEDALEY-----DAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
+ ED L D + +AGVLKLY R L PL +ED ++ +
Sbjct: 58 RGEDPLADDQNDHDINSVAGVLKLYFRGLENPLFPKERFEDLMSCVK 104
>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 = 61.2 bits (148), Expect = 2e-11
Identities = 30/71 (42%), Positives = 48/71 (67%), Gaps = 5/71 (7%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCLD--AHCIKFEDALEYDAHVLAGVLKLYLRELPEPLL 251
G+ EG++R +G +K+K L+ LD A+ + +D Y+ HV+A V K +LR+LP PL+
Sbjct: 30 GLYTEGIYRKSGSTNKIKELRQGLDTDANSVNLDD---YNIHVIASVFKQWLRDLPNPLM 86
Query: 252 TYALYEDWLAA 262
T+ LYE++L A
Sbjct: 87 TFELYEEFLRA 97
>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 = 61.1 bits (148), Expect = 2e-11
Identities = 31/83 (37%), Positives = 48/83 (57%), Gaps = 7/83 (8%)
Query: 178 KIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDAL----EYDAH 233
K+ + + C + + GM+E G++R++G A+ ++ LK D + +D E D +
Sbjct: 15 KVPYIVRQCVEEVERRGMEEVGIYRISGVATDIQALKAAFDTN---NKDVSVMLSEMDVN 71
Query: 234 VLAGVLKLYLRELPEPLLTYALY 256
+AG LKLY RELPEPL T LY
Sbjct: 72 AIAGTLKLYFRELPEPLFTDELY 94
>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 = 60.1 bits (146), Expect = 5e-11
Identities = 36/111 (32%), Positives = 56/111 (50%), Gaps = 8/111 (7%)
Query: 159 PMKPMFCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCL- 217
P + E L IG K + C A+ G++E+GL+RV G SKV++L +
Sbjct: 11 PGRLQSEVEGEAQLDDIGFKF---VRKCIEAVETRGINEQGLYRVVGVNSKVQKLLSLGL 67
Query: 218 ---DAHCIKFED-ALEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
+ + E++ + LK YLR LPEPL+TY L+ D++ AA+
Sbjct: 68 DPKTSTPGDVDLDNSEWEIKTITSALKTYLRNLPEPLMTYELHNDFINAAK 118
>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 = 59.2 bits (143), Expect = 1e-10
Identities = 31/71 (43%), Positives = 46/71 (64%), Gaps = 5/71 (7%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCL--DAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLL 251
G+ EG++R +G A+++K L L D +K E+ Y H + G+LK +LRELPEPL+
Sbjct: 30 GLYTEGIYRKSGSANRMKELHQLLQADPENVKLEN---YPIHAITGLLKQWLRELPEPLM 86
Query: 252 TYALYEDWLAA 262
T+A Y D+L A
Sbjct: 87 TFAQYNDFLRA 97
>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 = 58.9 bits (143), Expect = 1e-10
Identities = 25/66 (37%), Positives = 37/66 (56%), Gaps = 3/66 (4%)
Query: 194 GMDEEGLFRVTGGASKVKRLKT-CLDAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLLT 252
+ EG+FR + VK ++ + F+ D H+ A +LK +LRELPEPLLT
Sbjct: 38 ALTTEGIFRRSANTQVVKEVQQKYNMGEPVDFDQ--YEDVHLPAVILKTFLRELPEPLLT 95
Query: 253 YALYED 258
+ LY+D
Sbjct: 96 FDLYDD 101
>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 = 59.0 bits (143), Expect = 2e-10
Identities = 34/103 (33%), Positives = 58/103 (56%), Gaps = 5/103 (4%)
Query: 161 KPMFCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAH 220
K +F PL +L G + I+ R L +D+ GLFR +G S++++L++ +++
Sbjct: 2 KNVFGVPLLVNLQRTGQPLPRSIQQAMRWLRNNALDQVGLFRKSGVKSRIQKLRSMIESS 61
Query: 221 C--IKFEDALEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLA 261
+ ++ YD +A +LK Y R+LPEPLLT L E ++A
Sbjct: 62 TDNVNYDGQQAYD---VADMLKQYFRDLPEPLLTNKLSETFIA 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 = 58.3 bits (141), Expect = 2e-10
Identities = 36/97 (37%), Positives = 53/97 (54%), Gaps = 23/97 (23%)
Query: 179 IAFPIELCT-----RALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDAL----- 228
I F I+ CT RALC +G++RV G S+V++L C FE+
Sbjct: 16 IPFIIKKCTSEIESRALCL-----KGIYRVNGAKSRVEKL-------CQAFENGKDLVEL 63
Query: 229 -EYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
E H ++ VLKLYLR+LPEPL+ + LY +++ A+
Sbjct: 64 SELSPHDISNVLKLYLRQLPEPLILFRLYNEFIGLAK 100
>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 = 58.3 bits (141), Expect = 2e-10
Identities = 37/103 (35%), Positives = 58/103 (56%), Gaps = 3/103 (2%)
Query: 162 PMFCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHC 221
+F L EHL G + ++ CT + + G+ +G++R++G AS ++RL+ D+
Sbjct: 1 RVFGCDLTEHLLNSGQDVPQVLKSCTEFIEKHGI-VDGIYRLSGIASNIQRLRHEFDSEQ 59
Query: 222 IK--FEDALEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAA 262
I +D D H ++ + KLY RELP PLLTY LYE + A
Sbjct: 60 IPDLTKDVYIQDIHSVSSLCKLYFRELPNPLLTYQLYEKFSEA 102
>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 = 58.5 bits (142), Expect = 2e-10
Identities = 30/87 (34%), Positives = 50/87 (57%)
Query: 178 KIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAG 237
+I I+ A+ Q+ M EG+FR G ++K L +D + + D + + LA
Sbjct: 26 RIPALIDDIISAMRQMDMSVEGVFRKNGNIRRLKELTEEIDKNPTEVPDLSKENPVQLAA 85
Query: 238 VLKLYLRELPEPLLTYALYEDWLAAAR 264
+LK +LRELP+PLLT+ LY W+++ +
Sbjct: 86 LLKKFLRELPDPLLTFKLYRLWISSQK 112
>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 = 58.1 bits (141), Expect = 3e-10
Identities = 26/62 (41%), Positives = 38/62 (61%), Gaps = 5/62 (8%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDA---HVLAGVLKLYLRELPEPL 250
G++ EG+ R+ G A +VK L L+A +E +D H A +LKL++RELP+PL
Sbjct: 37 GLETEGILRIPGSAQRVKFLCQELEAKF--YEGTFLWDQVKQHDAASLLKLFIRELPQPL 94
Query: 251 LT 252
LT
Sbjct: 95 LT 96
>gnl|CDD|239837 cd04372, RhoGAP_chimaerin, RhoGAP_chimaerin: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of chimaerins. Chimaerins are a family
of phorbolester- and diacylglycerol-responsive GAPs
specific for the Rho-like GTPase Rac. Chimaerins exist
in two alternative splice forms that each contain a
C-terminal GAP domain, and a central C1 domain which
binds phorbol esters, inducing a conformational change
that activates the protein; one splice form is lacking
the N-terminal Src homology-2 (SH2) 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 = 194
Score = 57.5 bits (139), Expect = 4e-10
Identities = 30/103 (29%), Positives = 54/103 (52%), Gaps = 2/103 (1%)
Query: 164 FCQPLEEHLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIK 223
+ L + + +++C R + G+ EGL+RV+G A +++ +K D K
Sbjct: 1 YGCDLTTLVKAHNTQRPMVVDMCIREIEARGLQSEGLYRVSGFAEEIEDVKMAFDRDGEK 60
Query: 224 FEDALEY--DAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
+ + D +V+ G LKLY R+LP P++TY Y ++ AA+
Sbjct: 61 ADISATVYPDINVITGALKLYFRDLPIPVITYDTYPKFIDAAK 103
>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 = 57.1 bits (138), Expect = 5e-10
Identities = 28/93 (30%), Positives = 52/93 (55%), Gaps = 13/93 (13%)
Query: 178 KIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFE------DALEYD 231
++ F + CT + + +G++R++G ++V++L C FE D +
Sbjct: 15 EVPFVVVRCTAEIENRALGVQGIYRISGSKARVEKL-------CQAFENGRDLVDLSGHS 67
Query: 232 AHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
H + VLK +L+ELPEP+L + LY+D++A A+
Sbjct: 68 PHDITSVLKHFLKELPEPVLPFQLYDDFIALAK 100
>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 = 56.3 bits (136), Expect = 9e-10
Identities = 31/81 (38%), Positives = 42/81 (51%), Gaps = 4/81 (4%)
Query: 176 GCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLD-AHCIKFEDALEYDAHV 234
G + C + + GM EG+++V+G SKV LK + E EY+
Sbjct: 17 GIDLPLVFRECIDYVEKHGMKCEGIYKVSGIKSKVDELKAAYNRRESPNLE---EYEPPT 73
Query: 235 LAGVLKLYLRELPEPLLTYAL 255
+A +LK YLRELPEPLLT L
Sbjct: 74 VASLLKQYLRELPEPLLTKEL 94
>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 = 55.9 bits (135), Expect = 1e-09
Identities = 28/65 (43%), Positives = 39/65 (60%), Gaps = 2/65 (3%)
Query: 198 EGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLLTYALYE 257
EG+FRV G +V LK +D + + D HV A +LKL+LREL EPL+ ALY+
Sbjct: 41 EGIFRVPGDIDEVNELKLRVDQW--DYPLSGLEDPHVPASLLKLWLRELEEPLIPDALYQ 98
Query: 258 DWLAA 262
++A
Sbjct: 99 QCISA 103
>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 = 55.4 bits (134), Expect = 2e-09
Identities = 32/83 (38%), Positives = 48/83 (57%), Gaps = 3/83 (3%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCL--DAHCIKFEDALEYDAHVLAGVLK 240
++ C + Q G+ EG++R G S VK+L DA ++ EY H +A VLK
Sbjct: 19 VDKCIDFITQHGLMSEGIYRKNGKNSSVKKLLEAFRKDARSVQL-REGEYTVHDVADVLK 77
Query: 241 LYLRELPEPLLTYALYEDWLAAA 263
+LR+LP+PLLT L+ +W+ AA
Sbjct: 78 RFLRDLPDPLLTSELHAEWIEAA 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 = 55.2 bits (133), Expect = 3e-09
Identities = 34/83 (40%), Positives = 44/83 (53%), Gaps = 5/83 (6%)
Query: 181 FPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLK 240
F ++ CT L + EGLFR +G + K LK L+ AL D +AG+LK
Sbjct: 23 FLVDACTFLLDHLST--EGLFRKSGSVVRQKELKAKLEGGEACLSSALPCD---VAGLLK 77
Query: 241 LYLRELPEPLLTYALYEDWLAAA 263
+ RELPEPLL Y L+E L A
Sbjct: 78 QFFRELPEPLLPYDLHEALLKAQ 100
>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 = 54.6 bits (132), Expect = 4e-09
Identities = 32/85 (37%), Positives = 48/85 (56%), Gaps = 13/85 (15%)
Query: 186 CTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCIKF------EDALEYDAHVLAGVL 239
C + G+ EEGL+RV+G +VK LK KF + + D HV+ G L
Sbjct: 24 CVNEIEARGLTEEGLYRVSGSEREVKALKE-------KFLRGKTVPNLSKVDIHVICGCL 76
Query: 240 KLYLRELPEPLLTYALYEDWLAAAR 264
K +LR L EPL+T+AL+++++ AA
Sbjct: 77 KDFLRSLKEPLITFALWKEFMEAAE 101
>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 = 54.4 bits (131), Expect = 5e-09
Identities = 23/83 (27%), Positives = 48/83 (57%), Gaps = 2/83 (2%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDA-HCIKFEDALEYDAHVLAGVLKL 241
+E C + G++ EG++RV+G + + L+ D H + + ++ + +AG LK
Sbjct: 19 LEKCVEFIEATGLETEGIYRVSGNKTHLDSLQKQFDQDHNLDL-VSKDFTVNAVAGALKS 77
Query: 242 YLRELPEPLLTYALYEDWLAAAR 264
+ ELP+PL+ Y+++ + + AA+
Sbjct: 78 FFSELPDPLIPYSMHLELVEAAK 100
>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 = 53.2 bits (128), Expect = 1e-08
Identities = 33/72 (45%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEY--DAHVLAGVLKLYLRELPEPLL 251
G+D GL+R+ G A+K K L+ + + E + E D +V+ GVLK YLRELPEPL+
Sbjct: 33 GLDVIGLYRLCGSAAKKKELRDAFERNSAAVELSEELYPDINVITGVLKDYLRELPEPLI 92
Query: 252 TYALYEDWLAAA 263
T LYE L A
Sbjct: 93 TPQLYEMVLEAL 104
>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 = 49.7 bits (119), Expect = 2e-07
Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 2/84 (2%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDAHC--IKFEDALEYDAHVLAGVLK 240
+E+C + G++ G++RV G + + L+ L+ I +D D +V++ +LK
Sbjct: 22 VEVCCNIVEARGLETVGIYRVPGNNAAISALQEELNRGGFDIDLQDPRWRDVNVVSSLLK 81
Query: 241 LYLRELPEPLLTYALYEDWLAAAR 264
+ R+LPEPL T LY D++ A R
Sbjct: 82 SFFRKLPEPLFTNELYPDFIEANR 105
>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 = 49.4 bits (118), Expect = 3e-07
Identities = 27/66 (40%), Positives = 39/66 (59%)
Query: 198 EGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLLTYALYE 257
EGLFR G +++ + L+ L++ ++ + AH A VLK +L ELPEPLLT+A Y
Sbjct: 27 EGLFRKPGNSARQQELRDLLNSGTDLDLESGGFHAHDCATVLKGFLGELPEPLLTHAHYP 86
Query: 258 DWLAAA 263
L A
Sbjct: 87 AHLQIA 92
>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 = 47.4 bits (113), Expect = 2e-06
Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 3/82 (3%)
Query: 183 IELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLD-AHCIKFEDALEYDAHVLAGVLKL 241
+E C + L + G+ G+FRV +V++L+ D + ++ + H +A +LK
Sbjct: 13 VESCCQHLEKHGLQTVGIFRVGSSKKRVRQLREEFDRGIDVVLDE--NHSVHDVAALLKE 70
Query: 242 YLRELPEPLLTYALYEDWLAAA 263
+ R++P+PLL LY ++ A
Sbjct: 71 FFRDMPDPLLPRELYTAFIGTA 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 = 47.1 bits (112), Expect = 2e-06
Identities = 31/96 (32%), Positives = 47/96 (48%), Gaps = 3/96 (3%)
Query: 162 PMFCQPLEE--HLALIGCKIAFPIELCTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDA 219
+F PL+E + + L Q G+++EGLFRV G A V+ L+ LD+
Sbjct: 1 KVFGVPLQELQQAGQPENGVPAVVRHIVEYLEQHGLEQEGLFRVNGNAETVEWLRQRLDS 60
Query: 220 HCIKFEDALEYDAHVLAGVLKLYLRELPEPLLTYAL 255
E D A +L+L+L+ELPE L+ +L
Sbjct: 61 GEEVDLSK-EADVCSAASLLRLFLQELPEGLIPASL 95
>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 = 46.6 bits (111), Expect = 3e-06
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 186 CTRALCQIGMDEEGLFRVTGGASKVKRLKTCLDA---HCIKFEDALEYDAHVLAGVLKLY 242
C L + + EG+FRV G + +++ L+ + F+ Y H A VL+ Y
Sbjct: 39 CGVYLKENATEVEGIFRVAGSSKRIRELQLIFSTPPDYGKSFDW-DGYTVHDAASVLRRY 97
Query: 243 LRELPEPLLTYALYE 257
L LPEPL+ LYE
Sbjct: 98 LNNLPEPLVPLDLYE 112
>gnl|CDD|153302 cd07618, BAR_Rich1, The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP
interacting with CIP4 homologs protein 1. BAR domains
are dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. RhoGAP interacting with CIP4 homologs protein
1 (Rich1) is also called Neuron-associated
developmentally-regulated protein (Nadrin) or Rho GTPase
activating protein 17 (ARHGAP17). It is a Cdc42- and
Rac-specific GAP that binds to polarity proteins through
the scaffold protein angiomotin and plays a role in
maintaining the integrity of tight junctions. It may be
a component of a sorting mechanism in the recycling of
tight junction transmembrane proteins. Rich1 contains an
N-terminal BAR domain followed by a Rho GAP domain and a
C-terminal proline-rich domain. It interacts with the
BAR domain proteins endophilin and amphiphysin through
its proline-rich region. The BAR domain of Rich1 forms
oligomers and can bind membranes and induce membrane
tubulation.
Length = 246
Score = 42.3 bits (99), Expect = 9e-05
Identities = 23/67 (34%), Positives = 35/67 (52%)
Query: 22 EDTLATEMYYIIARECEIAQVIVDYVHMQKKQHEEALLHLNETLPQLNSLILVNPMKPMF 81
+D LA +MY ++E E A+ V + Q H +AL + + LP++ + KP F
Sbjct: 180 KDQLAADMYNFASKEGEYAKFFVLLLEAQADYHRKALAVIEKVLPEIQAHQDKWMEKPAF 239
Query: 82 CQPLEEH 88
PLEEH
Sbjct: 240 GTPLEEH 246
>gnl|CDD|153303 cd07619, BAR_Rich2, The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP
interacting with CIP4 homologs protein 2. BAR domains
are dimerization, lipid binding and curvature sensing
modules found in many different proteins with diverse
functions. RhoGAP interacting with CIP4 homologs protein
2 (Rich2) is a Rho GTPase activating protein that
interacts with CD317, a lipid raft-associated integral
membrane protein. It plays a role in actin cytoskeleton
organization and the maintenance of microvilli in
polarized epithelial cells. Rich2 contains an N-terminal
BAR domain followed by a GAP domain for Rho and Rac
GTPases and a C-terminal proline-rich domain. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 248
Score = 40.8 bits (95), Expect = 3e-04
Identities = 21/66 (31%), Positives = 35/66 (53%)
Query: 23 DTLATEMYYIIARECEIAQVIVDYVHMQKKQHEEALLHLNETLPQLNSLILVNPMKPMFC 82
D L+ +MY +A+E + A + +Q + H ++L L LPQ+ + KP +
Sbjct: 183 DQLSADMYSFVAKEIDYANYFQTLIEVQAEYHRKSLELLQSVLPQIKAHQEAWVEKPSYG 242
Query: 83 QPLEEH 88
+PLEEH
Sbjct: 243 KPLEEH 248
>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 = 38.9 bits (91), Expect = 0.001
Identities = 12/30 (40%), Positives = 21/30 (70%)
Query: 229 EYDAHVLAGVLKLYLRELPEPLLTYALYED 258
+++ +A VLKLYL ELP+ L+ + +Y+
Sbjct: 75 KFEPSTVASVLKLYLLELPDSLIPHDIYDL 104
>gnl|CDD|239853 cd04388, RhoGAP_p85, RhoGAP_p85: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain present in the
p85 isoforms of the regulatory subunit of the class IA
PI3K (phosphatidylinositol 3'-kinase). This domain is
also called Bcr (breakpoint cluster region protein)
homology (BH) domain. Class IA PI3Ks are heterodimers,
containing a regulatory subunit (p85) and a catalytic
subunit (p110) and are activated by growth factor
receptor tyrosine kinases (RTKs); this activation is
mediated by the p85 subunit. p85 isoforms, alpha and
beta, contain a C-terminal p110-binding domain flanked
by two SH2 domains, an N-terminal SH3 domain, and a
RhoGAP domain flanked by two proline-rich regions. 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 = 36.8 bits (85), Expect = 0.005
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 194 GMDEEGLFRVTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLLTY 253
G++ L+R T +S + L+ LD D ++D LA LK YL +LP P++
Sbjct: 30 GLESSTLYR-TQSSSSLTELRQILDCDAASV-DLEQFDVAALADALKRYLLDLPNPVIPA 87
Query: 254 ALYEDWLAAAR 264
+Y + ++ A+
Sbjct: 88 PVYSEMISRAQ 98
>gnl|CDD|239845 cd04380, RhoGAP_OCRL1, RhoGAP_OCRL1: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain present
in OCRL1-like proteins. OCRL1 (oculocerebrorenal
syndrome of Lowe 1)-like proteins contain two conserved
domains: a central inositol polyphosphate 5-phosphatase
domain and a C-terminal Rho GAP domain, this GAP domain
lacks the catalytic residue and therefore maybe
inactive. OCRL-like proteins are type II inositol
polyphosphate 5-phosphatases that can hydrolyze lipid
PI(4,5)P2 and PI(3,4,5)P3 and soluble Ins(1,4,5)P3 and
Ins(1,3,4,5)P4, but their individual specificities vary.
The functionality of the RhoGAP domain is still unclear.
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 = 35.0 bits (81), Expect = 0.022
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 7/86 (8%)
Query: 183 IELCTRALCQIGMDEEGLFR----VTGGASKVKRLKTCLDAHCIKFEDALEYDAHVLAGV 238
I L G+ +EGLF + + ++ LD A +A
Sbjct: 54 IWRLVDYLYTRGLAQEGLFEEPGLPSEPGELLAEIRDALDTGS---PFNSPGSAESVAEA 110
Query: 239 LKLYLRELPEPLLTYALYEDWLAAAR 264
L L+L LP+P++ Y+LYE L A
Sbjct: 111 LLLFLESLPDPIIPYSLYERLLEAVA 136
>gnl|CDD|225873 COG3336, COG3336, Predicted membrane protein [Function unknown].
Length = 299
Score = 29.7 bits (67), Expect = 1.6
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 218 DAHCIKFEDALEYDAHVLAGVLKLYLRELPEPLLTYALYEDWLAAAR 264
A + +A D L G + ELP+ L+ + L WL A R
Sbjct: 223 RALLP-WAEAPLADQQ-LGGGIMWSAGELPDILVIFVLLMQWLLADR 267
>gnl|CDD|147625 pfam05550, Peptidase_C53, Pestivirus Npro endopeptidase C53.
Unique to pestiviruses, the N-terminal protein encoded
by the bovine viral diarrhoea virus genome is a cysteine
protease (Npro) responsible for a self-cleavage that
releases the N terminus of the core protein. This unique
protease is dispensable for viral replication, and its
coding region can be replaced by a ubiquitin gene
directly fused in frame to the core.
Length = 168
Score = 27.8 bits (62), Expect = 4.4
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 182 PIELCTRA-LCQIGMDEEGLFRVTGGASKVKRLKTCLDAHCI 222
P+EL T +C++ + + RVTG K+ L C+D CI
Sbjct: 102 PLELFTETQMCEV---TKRIGRVTGSDGKLYHLYVCIDG-CI 139
>gnl|CDD|238927 cd01965, Nitrogenase_MoFe_beta_like, Nitrogenase_MoFe_beta_like:
Nitrogenase MoFe protein, beta subunit_like. The
nitrogenase enzyme catalyzes the ATP-dependent reduction
of dinitrogen (N2) to ammonia. This group contains the
beta subunits of component 1 of the three known
genetically distinct types of nitrogenase systems: a
molybdenum-dependent nitrogenase (Mo-nitrogenase), a
vanadium-dependent nitrogenase (V-nitrogenase), and an
iron-only nitrogenase (Fe-nitrogenase). These
nitrogenase systems consist of component 1 (MoFe
protein, VFe protein or, FeFe protein respectively) and,
component 2 (Fe protein). The most widespread and best
characterized of these systems is the Mo-nitrogenase.
MoFe is an alpha2beta2 tetramer, the alternative
nitrogenases are alpha2beta2delta2 hexamers having
alpha and beta subunits similar to the alpha and beta
subunits of MoFe. For MoFe, each alphabeta pair contains
one P-cluster (at the alphabeta interface) and, one
molecule of iron molybdenum cofactor (FeMoco) contained
within the alpha subunit. The Fe protein contains, a
single [4Fe-4S] cluster from which electrons are
transferred to the P-cluster of the MoFe and in turn,
to FeMoCo, the site of substrate reduction. The
V-nitrogenase requires an iron-vanadium cofactor
(FeVco), the iron only-nitrogenase an iron only cofactor
(FeFeco). These cofactors are analogous to the FeMoco.
The V-nitrogenase has P clusters identical to those of
MoFe. In addition to N2, nitrogenase also catalyzes the
reduction of a variety of other substrates such as
acetylene The V-nitrogenase differs from the
Mo-nitrogenase in that it produces free hydrazine, as a
minor product during N2-reduction and, ethane as a minor
product during acetylene reduction.
Length = 428
Score = 27.1 bits (61), Expect = 9.7
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 74 VNPMKPMFCQPLEEHLALIGCKIAFPI 100
+NP K CQPL LA +G + P+
Sbjct: 2 INPAK--ACQPLGAALAFLGIEGCMPL 26
Score = 27.1 bits (61), Expect = 9.7
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 157 VNPMKPMFCQPLEEHLALIGCKIAFPI 183
+NP K CQPL LA +G + P+
Sbjct: 2 INPAK--ACQPLGAALAFLGIEGCMPL 26
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
0.324 0.139 0.420
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: 13,597,352
Number of extensions: 1292385
Number of successful extensions: 959
Number of sequences better than 10.0: 1
Number of HSP's gapped: 922
Number of HSP's successfully gapped: 57
Length of query: 264
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 169
Effective length of database: 6,723,972
Effective search space: 1136351268
Effective search space used: 1136351268
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.1 bits)