RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15505
(2400 letters)
>gnl|CDD|149409 pfam08337, Plexin_cytopl, Plexin cytoplasmic RasGAP domain. This
family features the C-terminal regions of various
plexins. Plexins are receptors for semaphorins, and
plexin signalling is important in path finding and
patterning of both neurons and developing blood vessels.
The cytoplasmic region, which has been called a SEX
domain in some members of this family, is involved in
downstream signalling pathways, by interaction with
proteins such as Rac1, RhoD, Rnd1 and other plexins. This
domain acts as a RasGAP domain.
Length = 538
Score = 787 bits (2035), Expect = 0.0
Identities = 308/548 (56%), Positives = 383/548 (69%), Gaps = 49/548 (8%)
Query: 1678 GGIPFLDYRTYAMMILF--PNSEHHAVLQ--FERPELLHKEKGLRLFGQLIQNKTFLLLF 1733
GIPFLDY+ YA + F P E H +L+ E+GL F QL+ NK+FLL F
Sbjct: 1 SGIPFLDYKHYAERVFFPDPGHETHPLLRDLVPESRRPTVEQGLTQFSQLLNNKSFLLTF 60
Query: 1734 IRTLESNRYFSMRDRVNVASLIMVTLQN-------ILKTLLAELIEKCMEGKSHPKLLLR 1786
I TLES R FS+RDR NVASL+ V L ILKTLL +LIEK +E K +PKL+LR
Sbjct: 61 IHTLESQRSFSVRDRCNVASLLTVALHGKLEYCTDILKTLLRDLIEKSVEAK-NPKLMLR 119
Query: 1787 RTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAITAEARYSLSEE 1846
RTESV EKML++W + LYKFL+E AGEPL+LL++A+KQQ+DKGPVDA+T +ARY+L+E+
Sbjct: 120 RTESVVEKMLTNWMSICLYKFLKETAGEPLFLLYKAIKQQIDKGPVDAVTGKARYTLNED 179
Query: 1847 KLIRHAIDFKPMTVY-----------------------VKEKSLDTIYRATPYSLRPRKD 1883
KL+R I++KP+T+ VKEK LD +Y+ TPYS RPR +
Sbjct: 180 KLLREDIEYKPLTLNVIPQPEGDEAVPVKVLDCDTITQVKEKILDAVYKGTPYSQRPRAE 239
Query: 1884 DLDVEWRTGNTGRLILYDYDSTTKVEGEWKKVNTLNHYRVPDGGCLNLVSKQYNLSILSE 1943
DLD+EWR+G G +IL D D T+K EG WK++NTL HY+VPDG L LV KQ S +
Sbjct: 240 DLDLEWRSGRRGHVILSDEDVTSKSEGGWKRLNTLAHYKVPDGATLALVPKQA--SSYNN 297
Query: 1944 KTDKYETLNLSKMGRNTSPLNRDHDGMAKEWHLVKHHDSDNQKEGERS-----NKMVSEI 1998
+ + +P+ K WHLVK HD K+G R K + EI
Sbjct: 298 SLASSPDSS-----GSRTPMLTPDYESVKYWHLVKPHDEMEDKKGSRGSSGERKKAIPEI 352
Query: 1999 YLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGITDPEVVH 2058
YLTRLL+TKGTLQKFVDDLFE+I STA GSALPLA+KY FDFLD+QA HGI+DP+V+H
Sbjct: 353 YLTRLLSTKGTLQKFVDDLFESILSTA--GSALPLAVKYFFDFLDEQAEKHGISDPDVIH 410
Query: 2059 TWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTSDHRLGKDSPSS 2118
WK+NSLPLRFWVN+IKNP FVFDIHKS+ +D+CLSV+AQTFMD+CSTS+HRLGKDSPS+
Sbjct: 411 IWKTNSLPLRFWVNIIKNPQFVFDIHKSDSMDACLSVIAQTFMDACSTSEHRLGKDSPSN 470
Query: 2119 KLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFSTNCALYELYTY 2178
KLLYAKDIP YK+ VERYY DI+ M +SDQ+MN LAEESR H++EF+T AL+ELY Y
Sbjct: 471 KLLYAKDIPRYKKMVERYYKDIRQMPPLSDQEMNTHLAEESRKHSNEFNTLVALHELYKY 530
Query: 2179 ASKYNEQL 2186
KY +Q+
Sbjct: 531 VVKYRDQI 538
>gnl|CDD|213350 cd12790, RasGAP_plexin_A, Ras-GTPase Activating Domain of type A
plexins. Plexins form a conserved family of
transmembrane receptors for semaphorins and may be the
ancestors of semaphorins. They are divided into four
types (A-D) according to sequence similarity. In
vertebrates, there are four type A plexins (A1-A4) that
serve as the co-receptors for neuropilins to mediate the
signaling of class 3 semaphorins except Sema3E, which
signals through Plexin-D1. Plexins serve as direct
receptors for several other members of the semaphorin
family: class 1 and class 6 semaphorins signal through
type A plexins, which mediate diverse biological
functions including axon guidance, cardiovascular
development, and immune function. Guanylyl cyclase Gyc76C
and Off-track kinase (OTK), a putative receptor tyrosine
kinase, modulate Sema1a and Plexin-A mediated axon
repulsion. In their complex with Sema6s, type A plexins
serve as signal-transducing subunits. An increasing
number of molecules that interact with the intracellular
region of Plexin-A have been identified; among them are
IgCAMs (in axon guidance events) and Trem2-DAP12 (in
immune responses). Plexins contain a C-terminal RasGAP
domain, which functions as an enhancer of the hydrolysis
of GTP that is bound to Ras-GTPases. Plexins display GAP
activity towards the Ras homolog Rap. Although the Rho
(Ras homolog) GTPases are most closely related to members
of the Ras family, RhoGAP and RasGAP show no sequence
homology at their amino acid level. RasGTPases function
as molecular switches in a large number of of signaling
pathways. When bound to GTP they are in the on state and
when bound to GDP they are in the off state. The RasGAP
domain speeds up the hydrolysis of GTP in Ras-like
proteins acting as a negative regulator.
Length = 385
Score = 481 bits (1239), Expect = e-153
Identities = 181/218 (83%), Positives = 196/218 (89%)
Query: 1993 KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGIT 2052
KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLD+QA HGIT
Sbjct: 168 KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDEQADQHGIT 227
Query: 2053 DPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTSDHRLG 2112
DPEVVHTWKSN LPLRFWVNLIKNP FVFDIHKS+I D+CLSVVAQTFMDSCSTS+HRLG
Sbjct: 228 DPEVVHTWKSNCLPLRFWVNLIKNPQFVFDIHKSSITDACLSVVAQTFMDSCSTSEHRLG 287
Query: 2113 KDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFSTNCAL 2172
KDSPS+KLLYAKDIP YK WVERYY+DI M AISDQDMNA LAE+SRLH +EF+T AL
Sbjct: 288 KDSPSNKLLYAKDIPNYKSWVERYYADIAKMPAISDQDMNAYLAEQSRLHLNEFNTLSAL 347
Query: 2173 YELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQKSN 2210
ELY+Y +KY E++ LEEDEF++KQRLAYKLEQ N
Sbjct: 348 NELYSYVTKYKEEILTALEEDEFARKQRLAYKLEQVIN 385
Score = 303 bits (779), Expect = 6e-92
Identities = 119/167 (71%), Positives = 136/167 (81%), Gaps = 10/167 (5%)
Query: 1679 GIPFLDYRTYAMMILFPNSEHHAVL---QFERPELLHKEKGLRLFGQLIQNKTFLLLFIR 1735
GIPFLDYRTYAM +LFP E H VL + ER + EKGLRLFGQL+ NKTFLL FIR
Sbjct: 1 GIPFLDYRTYAMRVLFPGIEDHPVLRELEVERDRQENVEKGLRLFGQLLMNKTFLLTFIR 60
Query: 1736 TLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLLLRRT 1788
TLES R FSMRDR NVASLIMV LQ +ILK LLA+LIEK +E K+HPKLLLRRT
Sbjct: 61 TLESQRSFSMRDRGNVASLIMVVLQSKMEYATDILKQLLADLIEKNLESKNHPKLLLRRT 120
Query: 1789 ESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAI 1835
ESVAEKML++WFTFLLYKFL+ECAGEPL++LF A+KQQ++KGP+DAI
Sbjct: 121 ESVAEKMLTNWFTFLLYKFLKECAGEPLFMLFCAIKQQMEKGPIDAI 167
>gnl|CDD|213344 cd12205, RasGAP_plexin, Ras-GTPase Activating Domain of plexins.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Ligand binding activates signal transduction
pathways controlling axon guidance in the nervous system
and other developmental processes, including cell
migration and morphogenesis, immune function, and tumor
progression. Plexins are divided into four types (A-D)
according to sequence similarity. In vertebrates, type A
Plexins serve as the co-receptors for neuropilins to
mediate the signaling of class 3 semaphorins except
Sema3E, which signals through Plexin D1. Plexins serve as
direct receptors for several other members of the
semaphorin family: class 6 semaphorins signal through
type A plexins and class 4 semaphorins through type B.
Plexin C1 serves as the receptor of Sema7A and plays
regulation roles in both immune and nervous systems.
Plexins contain a C-terminal RasGAP domain, which
functions as an enhancer of the hydrolysis of GTP that is
bound to Ras-GTPases. Plexins display GAP activity
towards the Ras homolog Rap. Other proteins having a
RasGAP domain include p120GAP, IQGAP, Rab5-activating
protein 6, and Neurofibromin. Although the Rho (Ras
homolog) GTPases are most closely related to members of
the Ras family, RhoGAP and RasGAP show no sequence
homology at their amino acid level. RasGTPases function
as molecular switches in a large number of of signaling
pathways. When bound to GTP they are in the on state and
when bound to GDP they are in the off state. The RasGAP
domain speeds up the hydrolysis of GTP in Ras-like
proteins acting as a negative regulator.
Length = 382
Score = 375 bits (964), Expect = e-116
Identities = 138/215 (64%), Positives = 176/215 (81%), Gaps = 2/215 (0%)
Query: 1993 KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGIT 2052
K++ EI+LTRLL+TKGTLQKFVDDLFE+I S R +LP AIKY+FDFLD+QA HGI+
Sbjct: 167 KLIPEIFLTRLLSTKGTLQKFVDDLFESILSVPQR--SLPPAIKYLFDFLDEQARKHGIS 224
Query: 2053 DPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTSDHRLG 2112
DP+V+H WK+NSLPLRFWVN+IKNP+FVFD++K+ VDSCLSV+AQTFMD+CSTS+H+LG
Sbjct: 225 DPDVLHAWKTNSLPLRFWVNIIKNPDFVFDVNKTPTVDSCLSVIAQTFMDACSTSEHKLG 284
Query: 2113 KDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFSTNCAL 2172
KDSPS+KLL+AKDIP Y+E V +Y DI ++ +SD++MN+ LAE S H+ EF+TN AL
Sbjct: 285 KDSPSNKLLFAKDIPRYREMVANFYRDISNLPPVSDEEMNSYLAELSESHSGEFNTNVAL 344
Query: 2173 YELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQ 2207
ELY YA KY +QL LE+D ++ Q+LA KL Q
Sbjct: 345 SELYIYAVKYGDQLLEALEDDREARVQQLADKLSQ 379
Score = 237 bits (607), Expect = 8e-69
Identities = 90/169 (53%), Positives = 112/169 (66%), Gaps = 11/169 (6%)
Query: 1679 GIPFLDYRTYAMMILFPNSEHHAVLQFERPELL---HKEKGLRLFGQLIQNKTFLLLFIR 1735
GIPFLD+R Y + +LFP H VL + E L F QL+ NK FLL FIR
Sbjct: 1 GIPFLDFREYIIRVLFPGVNDHPVLLSKFVHGSRRPDLEDALSQFEQLLCNKQFLLTFIR 60
Query: 1736 TLESNRYFSMRDRVNVASLIMVTLQN-------ILKTLLAELIEKCMEGKSHPKLLLRRT 1788
TLES FS RD+ NVASL+MV LQ IL LL +LIEK + K HPKL+LRRT
Sbjct: 61 TLESQPKFSSRDKCNVASLLMVALQGKMEYATEILFDLLTDLIEKSVS-KKHPKLMLRRT 119
Query: 1789 ESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAITA 1837
ESV EK+L++W + LY +L+E AGEPL+LL++A+KQQ++KGPVDAI
Sbjct: 120 ESVVEKLLTNWLSLCLYDYLKETAGEPLFLLYKALKQQIEKGPVDAIKL 168
>gnl|CDD|200497 cd11236, Sema_plexin_like, The Sema domain, a protein interacting
module, of Plexins and MET-like receptor tyrosine
kinases. Plexins form a conserved family of
transmembrane receptors for semaphorins and may be the
ancestor of semaphorins. Ligand binding activates signal
transduction pathways controlling axon guidance in the
nervous system and other developmental processes
including cell migration and morphogenesis, immune
function, and tumor progression. Plexins are divided
into four types (A-D) according to sequence similarity.
In vertebrates, type A Plexins serve as the co-receptors
for neuropilins to mediate the signalling of class 3
semaphorins except Sema3E, which signals through Plexin
D1. Plexins serve as direct receptors for several other
members of the semaphorin family: class 6 semaphorins
signal through type A plexins and class 4 semaphorins
through type B. Plexin C1 serves as the receptor of
Sema7A and plays regulation roles in both immune and
nervous systems. This family also includes the Met and
RON receptor tyrosine kinases. The Sema domain is
located at the N-terminus and contains four disulfide
bonds formed by eight conserved cysteine residues. It
serves as a ligand-recognition and -binding module.
Length = 401
Score = 375 bits (966), Expect = e-116
Identities = 160/382 (41%), Positives = 215/382 (56%), Gaps = 53/382 (13%)
Query: 378 IYHTNPILILCVS---GTCTVRSLQNISDIVQNVREAVVANNGNASTFAFIAPGPPKPPS 434
I +++ LI C S G C +R+L NIS +V+ V AN+ NAST F+ PGP +
Sbjct: 70 IDYSSGRLITCGSLYQGVCQLRNLSNISVVVERSSTPVAANDPNASTVGFVGPGPY--NN 127
Query: 435 THVMYVGVTFTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIIN 494
+V+YVG T+T N YR P+++SRSL P+ F +T G+ + +++ R+RY I
Sbjct: 128 ENVLYVGATYTNNG-YRDYRPAVSSRSLPPDDDFNAGS--LTGGSAISIDDEYRDRYSIK 184
Query: 495 YVYGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSNSGKQYN 554
YVYGFSS GFSYF+T Q KS S YIS+LVR+C DSNYYSYTE+P+ C G YN
Sbjct: 185 YVYGFSSGGFSYFVTVQRKSVDDESPYISRLVRVCQSDSNYYSYTEVPLQCTGGDGTNYN 244
Query: 555 LVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIR 614
L+QA +VGK GSDLA LGI+ DDVLF VF++S+ P S P + SALC++ + I
Sbjct: 245 LLQAAYVGKAGSDLARSLGISTDDDVLFGVFSKSKGP----SAEPSSKSALCVFSMKDIE 300
Query: 615 RKFMQNIKTCFSGQGNRGLDFISPAHPCVQTKLQTIGEDFCGLDVNTPLGGENPIEAVAV 674
F N PLGG PI AV
Sbjct: 301 AAFND----------------------------------------NCPLGGGVPITTSAV 320
Query: 675 LNFSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENMTVNADLH 734
L+ T+VA T+T ++TV F+GT G LKKVV+E+SS A +Y + VD + D+
Sbjct: 321 LS-DSLLTSVAVTTTRNHTVAFLGTSDGQLKKVVLESSSSATQYETLLVDSGSPILPDMV 379
Query: 735 LDSKAMHLYVMTERRVSKVKVQ 756
D HLYVMT ++V+KV V+
Sbjct: 380 FDPDGEHLYVMTPKKVTKVPVE 401
>gnl|CDD|213347 cd12787, RasGAP_plexin_B, Ras-GTPase Activating Domain of type B
plexins. Plexins form a conserved family of
transmembrane receptors for semaphorins and may be the
ancestors of semaphorins. Plexins are divided into four
types (A-D) according to sequence similarity.There are
three members of the Plexin-B subfamily, namely B1, B2
and B3. Plexins-B1, B2 and B3 are receptors for Sema4D,
Sema4C and Sema4G, and Sema5A, respectively. The
activation of plexin-B1 by Sema4D produces an acute
collapse of axonal growth cones in hippocampal and
retinal neurons over the early stages of neurite
outgrowth and promotes branching and complexity. By
signaling the effect of Sema4C and Sema4G, the plexin-B2
receptor is critically involved in neural tube closure
and cerebellar granule cell development. Plexin-B3, the
receptor of Sema5A, is a highly potent stimulator of
neurite outgrowth of primary murine cerebellar neurons.
Plexin-B3 has been linked to verbal performance and white
matter volume in human brain. Small GTPases play
important roles in plexin-B signaling. Plexin-B1
activates Rho through Rho-specific guanine nucleotide
exchange factors, leading to neurite retraction.
Plexin-B1 possesses an intrinsic GTPase-activating
protein activity for R-Ras and induces growth cone
collapse through R-Ras inactivation. Plexins contain a
C-terminal RasGAP domain, which functions as an enhancer
of the hydrolysis of GTP that is bound to Ras-GTPases.
Plexins display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 391
Score = 305 bits (782), Expect = 2e-92
Identities = 125/221 (56%), Positives = 168/221 (76%), Gaps = 4/221 (1%)
Query: 1987 EGERSNKMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQA 2046
G+R+ K + EIYLTRLL+ KGTLQKFVDD F++I S +P A+KY FD LD+QA
Sbjct: 168 TGKRA-KAIPEIYLTRLLSMKGTLQKFVDDFFQSILSPGR---PVPPAVKYFFDLLDEQA 223
Query: 2047 LNHGITDPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCST 2106
HGI D + +H WK+NSLPLRFWVN++KNP F+FD+H S+ VD+ LSV+AQTFMD+C+
Sbjct: 224 EKHGIQDEDTIHIWKTNSLPLRFWVNILKNPQFIFDVHVSDNVDASLSVIAQTFMDACTR 283
Query: 2107 SDHRLGKDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEF 2166
++H+LG+DSPS+KLLYA++IP YK+ VERYY+DI+ M SDQ+MN+ LAE SR +
Sbjct: 284 TEHKLGRDSPSNKLLYAREIPRYKKMVERYYADIRQMVPASDQEMNSHLAELSRNYTDSL 343
Query: 2167 STNCALYELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQ 2207
+T AL+ELY Y KY +Q+ LEED +QK +LA++L+Q
Sbjct: 344 NTLVALHELYQYIQKYYDQIINALEEDPAAQKMQLAFRLQQ 384
Score = 169 bits (430), Expect = 2e-45
Identities = 86/184 (46%), Positives = 117/184 (63%), Gaps = 14/184 (7%)
Query: 1679 GIPFLDYRTYAMMILFPNS-----EHHAVLQFERPELLHKEKGLRLFGQLIQNKTFLLLF 1733
GIPFLDY+TYA + FP + L P E+GL L+ +K FL+ F
Sbjct: 1 GIPFLDYKTYAERVFFPGHKDGPLDVMIKLDIPEPRRPTVEQGLYQLSNLLNSKLFLINF 60
Query: 1734 IRTLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLLLR 1786
I TLE+ R FS RDRV VASL+ V L +I++TLL +L+ + + +PKL+LR
Sbjct: 61 IHTLENQREFSARDRVYVASLLTVALHGKLEYYTDIMRTLLLDLLAQYVV--KNPKLMLR 118
Query: 1787 RTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAITAEARYSLSEE 1846
RTE+V EK+L++W + LY+FLR+ AGEPLY+LFRA+K QVDKGPVDA+T + ++ E
Sbjct: 119 RTETVVEKLLTNWMSICLYQFLRDSAGEPLYMLFRAIKHQVDKGPVDAVTGKRAKAIPEI 178
Query: 1847 KLIR 1850
L R
Sbjct: 179 YLTR 182
>gnl|CDD|213353 cd12793, RasGAP_plexin_B1, Ras-GTPase Activating Domain of plexin-B1.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Plexins are divided into four types (A-D)
according to sequence similarity. Plexin-B1 serves as the
Semaphorin 4D receptor and functions as a regulator of
developing neurons and a tumor suppressor protein for
melanoma. The Sema4D and plexin-B1 signaling complex
regulates dendritic and axonal complexity. The activation
of Plexin-B1 by Sema4D produces an acute collapse of
axonal growth cones in hippocampal and retinal neurons
over the early stages of neurite outgrowth and promotes
branching and complexity. As a tumor suppressor,
plexin-B1 abrogates activation of the oncogenic receptor,
c-Met, by its ligand, hepatocyte growth factor (HGF), in
melanoma. Furthermore, plexin-B1 suppresses
integrin-dependent migration and activation of pp125FAK
and inhibits Rho activity. Plexin-B1 is highly expressed
in endothelial cells and its activation by Sema4D elicits
a potent proangiogenic response. Plexins contain a
C-terminal RasGAP domain, which functions as an enhancer
of the hydrolysis of GTP that is bound to Ras-GTPases.
Plexins display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 394
Score = 294 bits (754), Expect = 1e-88
Identities = 131/224 (58%), Positives = 172/224 (76%), Gaps = 3/224 (1%)
Query: 1988 GERSNKMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQAL 2047
G+ K + EIYLTRLL+ KGTLQKFVDDLF I ST+ +PLA+KY FD LD+QAL
Sbjct: 167 GKERAKAIPEIYLTRLLSMKGTLQKFVDDLFTVILSTSR---PVPLAVKYFFDLLDEQAL 223
Query: 2048 NHGITDPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTS 2107
HGI+DPE +H WK+NSLPLRFW+N+IKNP F+FD+ S+ VD+ LSV+AQTFMDSC+ +
Sbjct: 224 QHGISDPETIHIWKTNSLPLRFWINIIKNPQFIFDVQTSDNVDAVLSVIAQTFMDSCTIA 283
Query: 2108 DHRLGKDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFS 2167
DH+LG+DSP +KLLYA+DIP YK+ VERYY+DI+ + SDQ+MN+ LAE SR ++ E +
Sbjct: 284 DHKLGRDSPINKLLYARDIPRYKQMVERYYADIRQTVSASDQEMNSALAELSRNYSGELN 343
Query: 2168 TNCALYELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQKSNA 2211
AL+ELY Y +KY +Q+ LEED +QK +L Y+L+Q + A
Sbjct: 344 YLVALHELYKYINKYYDQIITALEEDSTAQKMQLGYRLQQIAAA 387
Score = 163 bits (414), Expect = 3e-43
Identities = 93/212 (43%), Positives = 125/212 (58%), Gaps = 16/212 (7%)
Query: 1679 GIPFLDYRTYAMMILFPNSEHHAVLQ-FERPELLHK--EKGLRLFGQLIQNKTFLLLFIR 1735
GIPFLDYR YA I FP + + + PE + E+GL L+ +K FL FI
Sbjct: 1 GIPFLDYRMYAERIFFPGHRESPLRRDLDVPECRRQTVEQGLVQLSNLLNSKLFLTKFIH 60
Query: 1736 TLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLLLRRT 1788
TLES R FS RDR VASL+ V L +ILKTLL +L+E+ + +PKL+LRRT
Sbjct: 61 TLESQRTFSPRDRAYVASLLTVALHGKLEYFTDILKTLLNDLVEQYV--AKNPKLMLRRT 118
Query: 1789 ESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAITAEARYSLSEEKL 1848
E+V EK+L++W + LY FLR+ AGE LY+LFRA+K QVDKGPVDA+T + R E
Sbjct: 119 ETVVEKLLTNWMSICLYTFLRDSAGESLYMLFRAIKHQVDKGPVDAVTGKERAKAIPEIY 178
Query: 1849 IRHAIDFKPMTVYVKEKSLDTIYRATPYSLRP 1880
+ + K +K +D ++ + RP
Sbjct: 179 LTRLLSMKGTL----QKFVDDLFTVILSTSRP 206
>gnl|CDD|213351 cd12791, RasGAP_plexin_B3, Ras-GTPase Activating Domain of plexin-B3.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Plexins are divided into four types (A-D)
according to sequence similarity. Plexin-B3 is the
receptor of semaphorin 5A. It is a highly potent
stimulator of neurite outgrowth of primary murine
cerebellar neurons. Plexin-B3 has been linked to verbal
performance and white matter volume in human brain.
Furthermore, Sema5A and plexin-B3 have been implicated in
the progression of various types of cancer. They play an
important role in the invasion and metastasis of gastric
carcinoma. The protein and mRNA expression of Sema5A and
its receptor plexin-B3 increased gradually in
non-neoplastic mucosa, primary gastric carcinoma, and
lymph node metastasis, and their expression is
correlated. The stimulation of plexin-B3 by Sema5A
binding in human glioma cells results in the inhibition
of cell migration and invasion. Plexins contain a
C-terminal RasGAP domain, which functions as an enhancer
of the hydrolysis of GTP that is bound to Ras-GTPases.
Plexins display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 397
Score = 290 bits (743), Expect = 5e-87
Identities = 116/221 (52%), Positives = 157/221 (71%), Gaps = 4/221 (1%)
Query: 1988 GERSN-KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQA 2046
G+R K + EIYLTRLL+ KGTLQKFVDD F+ I S +P+A+KY+FDFLD+ A
Sbjct: 169 GKRERAKAIPEIYLTRLLSMKGTLQKFVDDTFQAILSV---NRPVPIAVKYLFDFLDELA 225
Query: 2047 LNHGITDPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCST 2106
HGI DPE +H WK+NSL LRFWVN +KNP F+FD+ S+ VD+ L+V+AQTF+DSC+
Sbjct: 226 EKHGIEDPETLHIWKTNSLLLRFWVNTLKNPQFIFDVRVSDNVDAILAVIAQTFIDSCTI 285
Query: 2107 SDHRLGKDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEF 2166
S+H++G+DSP +KLLYA++IP YK+ VE+YY+DI+ S Q+MN+ L E S + S
Sbjct: 286 SEHKVGRDSPVNKLLYAREIPRYKQMVEKYYADIRQSSPASYQEMNSALTELSGNYTSAP 345
Query: 2167 STNCALYELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQ 2207
AL ELY + +Y +Q+ LEED QK +LA +L+Q
Sbjct: 346 HCLVALQELYNHIHRYYDQIISALEEDPVGQKMQLACRLQQ 386
Score = 171 bits (436), Expect = 4e-46
Identities = 82/171 (47%), Positives = 105/171 (61%), Gaps = 16/171 (9%)
Query: 1679 GIPFLDYRTYAMMILFPNSEHHAVLQFERPELLHK------EKGLRLFGQLIQNKTFLLL 1732
GIPFLDYRTYA + FP LQ + E+GL L+ +K FLL
Sbjct: 1 GIPFLDYRTYAERVFFP-GHGGCPLQPSLEGDGEEGRRATVEQGLTQLSNLLNSKLFLLT 59
Query: 1733 FIRTLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLLL 1785
I TLE FS RDR +VASL+ + L +I+KTLL +L + +PKL+L
Sbjct: 60 LIHTLEEQPSFSQRDRCHVASLLSLALHGKLEYLTDIMKTLLGDLAAHYV--HKNPKLML 117
Query: 1786 RRTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAIT 1836
RRTE++ EK+L++W + LY FLRE AGEPLY+LFRA+K QVDKGPVDA+T
Sbjct: 118 RRTETMVEKLLTNWMSICLYAFLREVAGEPLYMLFRAIKYQVDKGPVDAVT 168
>gnl|CDD|213348 cd12788, RasGAP_plexin_D1, Ras-GTPase Activating Domain of plexin-D1.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Plexins are divided into four types (A-D)
according to sequence similarity. Plexin-D1 has been
identified as the receptor of Sema3E. It binds to Sema3E
directly with high affinity. Sema3E is implicated in
axonal path finding and inhibition of developmental and
postischemic angiogenesis. Plexin-D1 is broadly expressed
on tumor vessels and tumor cells in a number of different
types of human tumors. The Plexin-D1 and Sema3E
interaction inhibits tumor growth but promotes
invasiveness and metastasis. Plexins contain a C-terminal
RasGAP domain, which functions as an enhancer of the
hydrolysis of GTP that is bound to Ras-GTPases. Plexins
display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 419
Score = 288 bits (738), Expect = 4e-86
Identities = 123/215 (57%), Positives = 167/215 (77%), Gaps = 2/215 (0%)
Query: 1993 KMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGIT 2052
K++ EIYLTRLL+TKGTLQKF+DDLF+ I S PLA+KY FDFL++QA GIT
Sbjct: 192 KVLPEIYLTRLLSTKGTLQKFLDDLFQAILSI--PEDRPPLAVKYFFDFLEEQAEKRGIT 249
Query: 2053 DPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTSDHRLG 2112
DP+ +H WK+NSLPLRFWVN++KNP FVFDI K++ +D+CLSV+AQ F+D+CS SD +LG
Sbjct: 250 DPDTLHIWKTNSLPLRFWVNILKNPQFVFDIDKTDHMDACLSVIAQAFIDACSISDLQLG 309
Query: 2113 KDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFSTNCAL 2172
KDSP++KLLYAK+IP Y++ V+RYY I+ M +S+Q+MNA LAEESR + +EF+TN A+
Sbjct: 310 KDSPTNKLLYAKEIPEYRKIVQRYYQQIQEMPPLSEQEMNAHLAEESRKYRNEFNTNVAM 369
Query: 2173 YELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQ 2207
E+Y YA +Y Q+ LE + +++ +L +K EQ
Sbjct: 370 AEIYKYAKRYRAQIVSALESNPTARRTQLQHKFEQ 404
Score = 135 bits (340), Expect = 2e-33
Identities = 74/191 (38%), Positives = 108/191 (56%), Gaps = 36/191 (18%)
Query: 1679 GIPFLDYRTYAMMILFPN------------------------SEHHAVLQ-FERPELL-- 1711
GIPFL+Y+ + FP E H +LQ ++ PE
Sbjct: 2 GIPFLEYKHFVTRTFFPKCSSLYEERYVLPSQENNSQGPRQVPETHPLLQEWKIPESCRP 61
Query: 1712 HKEKGLRLFGQLIQNKTFLLLFIRTLESNRYFSMRDRVNVASLIMVTLQ-------NILK 1764
+ E+G+ LF L+ NK FL+ F+ LE + F++RDR N+ASL+ + L +I+K
Sbjct: 62 NMEEGITLFSTLLNNKHFLVTFVHALEQQKDFAVRDRCNLASLLTIALHGKLEYYTSIMK 121
Query: 1765 TLLAELIEKCMEGKSHPKLLLRRTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMK 1824
LL +LI+ +PKL+LRRTESV EKML++W + +Y +LRE GEP +LL A+K
Sbjct: 122 DLLVDLIDA--SASKNPKLMLRRTESVVEKMLTNWMSICMYSYLRETVGEPFFLLLCAIK 179
Query: 1825 QQVDKGPVDAI 1835
QQ++KG +DAI
Sbjct: 180 QQINKGSIDAI 190
>gnl|CDD|213352 cd12792, RasGAP_plexin_B2, Ras-GTPase Activating Domain of plexin-B2.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Plexins are divided into four types (A-D)
according to sequence similarity. Plexin-B2 serves as the
receptor of Sema4C and Sema4G. By signaling the effect of
Sema4C and Sema4G, the plexin-B2 receptor is critically
involved in neural tube closure and cerebellar granule
cell development. Mice lacking Plexin-B2 demonstrated
defects in closure of the neural tube and disorganization
of the embryonic brain. In developing kidney, Sema4C and
Plexin-B2 signaling modulates ureteric branching.
Plexin-B2 is expressed both in the pretubular aggregates
and the ureteric epithelium in the developing kidney.
Deletion of Plexin-B2 results in renal hypoplasia and
occasional double ureters. Plexins contain a C-terminal
RasGAP domain, which functions as an enhancer of the
hydrolysis of GTP that is bound to Ras-GTPases. Plexins
display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 400
Score = 286 bits (733), Expect = 1e-85
Identities = 120/237 (50%), Positives = 173/237 (72%), Gaps = 3/237 (1%)
Query: 1975 HLVKHHDSDNQKEGERSNKMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLA 2034
H V+ D ++ + K ++EIYLTRLL+ KGTLQ+FVD+ F ++ + G+ +P A
Sbjct: 160 HQVEKGPVDAVQKKKERTKAITEIYLTRLLSVKGTLQQFVDNFFRSVLCS---GAVVPPA 216
Query: 2035 IKYMFDFLDDQALNHGITDPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLS 2094
+KY FDFLD+QA H I D E +H WK+NSLPLRFWVN++KNP+F+FD+H + +VD+ LS
Sbjct: 217 VKYFFDFLDEQAEKHDIVDEETIHIWKTNSLPLRFWVNILKNPHFIFDVHVTEVVDASLS 276
Query: 2095 VVAQTFMDSCSTSDHRLGKDSPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAM 2154
V+AQTFMD+C+ ++H+L +DSPS+KLLYAK+I YK+ V+ YY I+ M +SDQDMN
Sbjct: 277 VIAQTFMDACTKTEHKLSRDSPSNKLLYAKEISTYKKMVDDYYKGIRQMVPVSDQDMNTH 336
Query: 2155 LAEESRLHNSEFSTNCALYELYTYASKYNEQLTVTLEEDEFSQKQRLAYKLEQKSNA 2211
LAE SR H + +T AL++LY YASKY +++ +LEED +Q ++L +L+Q + A
Sbjct: 337 LAEISRAHTDKLNTQVALHQLYQYASKYYDEIINSLEEDPAAQSKQLTLRLQQIAAA 393
Score = 150 bits (380), Expect = 1e-38
Identities = 76/174 (43%), Positives = 109/174 (62%), Gaps = 15/174 (8%)
Query: 1679 GIPFLDYRTYAMMILFPNSEHHA-------VLQFERPELLHKEKGLRLFGQLIQNKTFLL 1731
IPFLDY+TY + F S+ A L E+ L F L+ +KTFL+
Sbjct: 1 RIPFLDYKTYTDRVFFLPSKDGANDVMITGKLDIPEARRATVEQALNQFSNLLNSKTFLI 60
Query: 1732 LFIRTLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLL 1784
FI TLE+ R F+ R +V ASL+ V L +I++TLL EL+E+ + K+ PKL+
Sbjct: 61 NFIHTLENQRDFNARAKVYFASLLTVALHGKLEYYTDIMRTLLLELMEQYVHSKN-PKLM 119
Query: 1785 LRRTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAITAE 1838
LRR+E+V E+MLS+W + LY++L++ AGEPLY LF+A+K QV+KGPVDA+ +
Sbjct: 120 LRRSETVVERMLSNWMSICLYQYLKDTAGEPLYKLFKAIKHQVEKGPVDAVQKK 173
>gnl|CDD|213349 cd12789, RasGAP_plexin_C1, Ras-GTPase Activating Domain of plexin-C1.
Plexins form a conserved family of transmembrane
receptors for semaphorins and may be the ancestors of
semaphorins. Plexins are divided into four types (A-D)
according to sequence similarity. Plexin-C1 has been
identified as the receptor of semaphorin 7A, which plays
regulatory roles in both the immune and nervous systems.
Unlike other semaphorins which act as repulsive guidance
cues, Sema7A enhances central and peripheral axon growth
and is required for proper axon tract formation during
embryonic development. Plexin-C1 is a potential tumor
suppressor for melanoma progression. The expression of
Plexin-C1 is diminished or absent in human melanoma cell
lines. Cofilin, an actin-binding protein involved in cell
migration, is a downstream target of Sema7A and Plexin-C1
signaling. Melanoma invasion and metastasis may be
promoted through the loss of Plexin-C1 inhibitory
signaling on cofilin activation. Plexins contain a
C-terminal RasGAP domain, which functions as an enhancer
of the hydrolysis of GTP that is bound to Ras-GTPases.
Plexins display GAP activity towards the Ras homolog Rap.
Although the Rho (Ras homolog) GTPases are most closely
related to members of the Ras family, RhoGAP and RasGAP
show no sequence homology at their amino acid level.
RasGTPases function as molecular switches in a large
number of of signaling pathways. When bound to GTP they
are in the on state and when bound to GDP they are in the
off state. The RasGAP domain speeds up the hydrolysis of
GTP in Ras-like proteins acting as a negative regulator.
Length = 393
Score = 247 bits (633), Expect = 2e-72
Identities = 109/213 (51%), Positives = 147/213 (69%), Gaps = 5/213 (2%)
Query: 1995 VSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGITDP 2054
V E+YLT+LL+TK + V+ LF +I+S + + P+AIKY FDFLD QA N ITDP
Sbjct: 172 VKEMYLTKLLSTKVAIHSVVEKLFRSIWSLPN--NKAPVAIKYFFDFLDAQAENKKITDP 229
Query: 2055 EVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVDSCLSVVAQTFMDSCSTSDHRLGKD 2114
+V+H WK+NSLPLRFWVN++KNP FVFDI K+ +D CLSV+AQ FMDS S S+ LGK+
Sbjct: 230 DVLHIWKTNSLPLRFWVNILKNPQFVFDIKKTPHLDGCLSVIAQAFMDSFSLSEQHLGKE 289
Query: 2115 SPSSKLLYAKDIPAYKEWVERYYSDIKSMQAISDQDMNAMLAEESRLHNSEFSTNCALYE 2174
+P++KLLYAKDIP YKE V+ YY I+ + +S ++ L +ES+ H +EF+ AL E
Sbjct: 290 APTNKLLYAKDIPQYKEEVKSYYKAIRDLPPLSSSELEEFLTQESKKHENEFNEEVALME 349
Query: 2175 LYTYASKYNEQLTVTLEED---EFSQKQRLAYK 2204
+Y Y KY +++ LE + E QKQ L K
Sbjct: 350 IYKYIVKYFDEILNKLERERGLEEVQKQLLHVK 382
Score = 144 bits (364), Expect = 1e-36
Identities = 67/169 (39%), Positives = 96/169 (56%), Gaps = 13/169 (7%)
Query: 1678 GGIPFLDYRTYAMMILFPNSEHHA----VLQFERPELLHKEKGLRLFGQLIQNKTFLLLF 1733
G +PFLDY+ +A+ FP S + K++ L +LI NK+FL+
Sbjct: 2 GTVPFLDYKHFALRTFFPESGGFTHIFTRDDPHDRDQTDKDESLTALDKLICNKSFLVTL 61
Query: 1734 IRTLESNRYFSMRDRVNVASLIMVTLQ-------NILKTLLAELIEKCMEGKSHPKLLLR 1786
I TLE + FS++DR AS + + LQ IL+ L +L+++ + PKLLLR
Sbjct: 62 IHTLEKQKNFSVKDRCLFASFLTIALQTKLVYLTEILEVLTKDLMDQS--SNAQPKLLLR 119
Query: 1787 RTESVAEKMLSSWFTFLLYKFLRECAGEPLYLLFRAMKQQVDKGPVDAI 1835
RTESV EK+L++W + L FLRE GEP YLL + Q+++KGPVD I
Sbjct: 120 RTESVVEKLLTNWMSVCLSGFLRETVGEPFYLLVTTLNQKINKGPVDVI 168
>gnl|CDD|200505 cd11244, Sema_plexin_A, The Sema domain, a protein interacting
module, of Plexin A. Plexins serve as receptors of
semaphorins and may be the ancestor of semaphorins.
Members of the Plexin A subfamily are receptors for
Sema1s, Sema3s, and Sema6s, and they mediate diverse
biological functions including axon guidance,
cardiovascular development, and immune function.
Guanylyl cyclase Gyc76C and Off-track kinase (OTK), a
putative receptor tyrosine kinase, modulate
Sema1a-Plexin A mediated axon repulsion. Sema3s do not
interact directly with plexin A receptors, but instead
bind Neuropilin-1 or Neuropilin-2 toactivate
neuropilin-plexin A holoreceptor complexes. In contrast
to Sema3s, Sema6s do not require neuropilins for plexin
A binding. In the complex, plexin As serve as
signal-transducing subunits. An increasing number of
molecules that interact with the intracellular region of
Plexin A have been identified; among them are IgCAMs (in
axon guidance events) and Trem2-DAP12 (in immune
responses). The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 470
Score = 224 bits (572), Expect = 3e-63
Identities = 120/335 (35%), Positives = 191/335 (57%), Gaps = 25/335 (7%)
Query: 438 MYVGVTFTGNSPYRSEVPSIASRSL--DPER--MFQIA--DSAVTTGTRMFVNNLAR-ER 490
+++G G S Y P+++SR L D E MF D V++ ++ + L+
Sbjct: 145 LFIGTAVDGKSEY---FPTLSSRKLTADEESDGMFAYVYHDEFVSSQIKIPSDTLSIIPD 201
Query: 491 YIINYVYGFSSEGFSYFLTTQLK------SNIGTSFYISKLVRICHDDSNYYSYTEIPIT 544
+ I YVYGFSS F YFLT Q + + G FY SK+VR+C DD+ +YSY E PI
Sbjct: 202 FDIYYVYGFSSGNFVYFLTLQPETQLTPGDSTGEQFYTSKIVRLCKDDTKFYSYVEFPIG 261
Query: 545 CNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSA 604
C + G +Y L+QA ++ KPG LA LGI+ +DVLF +F++ + + +P + SA
Sbjct: 262 C-TRDGVEYRLLQAAYLSKPGKALAQALGISEDEDVLFTIFSKGQ----KNRMKPPDESA 316
Query: 605 LCIYPLASIRRKFMQNIKTCFSGQGNRGLDFISPAH-PCVQTKLQTIGEDFCGLDVNTPL 663
LC++ L I + + +++C+ G+G L ++ PC+ LQ I ++FCGLD+N PL
Sbjct: 317 LCLFTLKQINLRIKERLQSCYRGEGKLSLPWLLNKDLPCINAPLQ-IDDNFCGLDMNQPL 375
Query: 664 GGENPIEAVAVLNFSV-RCTAVAATSTGDYTVVFIGTDTGHLKKVVVE-TSSIAIEYGDV 721
GG + +E + + R T+VAA ++VVF+GT +G LKK+ V+ A++Y V
Sbjct: 376 GGSDMVEGIPLFTDDRDRMTSVAAYVYKGHSVVFVGTKSGKLKKIRVDGPPHNALQYETV 435
Query: 722 KVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
+V E + D+ +LY+M+ER+V++V V+
Sbjct: 436 QVVEGSPILRDMAFSPDHQYLYIMSERQVTRVPVE 470
>gnl|CDD|200534 cd11273, Sema_plexin_A3, The Sema domain, a protein interacting
module, of Plexin A3. Plexin-A3 forms a receptor
complex with neuropilin-2 and transduces signals for
class 3 semaphorins in the nervous system. Both plexins
A3 and A4 are essential for normal sympathetic neuron
development. They function cooperatively to regulate the
migration of sympathetic neurons, and differentially to
guide sympathetic axons. Both plexins A3 and A4 are not
required for guiding neural crest precursors prior to
reaching the sympathetic anlagen. Plexin A3 is a major
driving force for intraspinal motor growth cone
guidance. The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 469
Score = 209 bits (534), Expect = 3e-58
Identities = 134/420 (31%), Positives = 219/420 (52%), Gaps = 44/420 (10%)
Query: 368 LRVAAECKAPIYHTNPILIL---------CVS---GTCTVRSLQNISDIVQ--NVREAVV 413
+RV A AP+ + N +L++ C S G C L+++ + + + +E +
Sbjct: 63 VRVCAHRLAPVDNVNKLLLVDYAGNRLVACGSIWQGVCQFLRLEDLFKLGEPHHRKEHYL 122
Query: 414 ANNGNASTFAFIAPGPPKPPSTHVMYVGVTFTGNSPYRSEVPSIASRSLDPER----MFQ 469
+ + A + K PS ++VG G S Y P+++SR L + MF
Sbjct: 123 SGAQEPDSMAGVIVEQGKGPSK--LFVGTAIDGKSEY---FPTLSSRKLISDEDSADMFS 177
Query: 470 IA--DSAVTTGTRMFVNNLAR-ERYIINYVYGFSSEGFSYFLTTQLKSNI------GTSF 520
+ D V++ ++ + L+ + I YVYGF S F YFLT QL + G F
Sbjct: 178 LVYQDEFVSSQIKIPSDTLSLYPAFDIYYVYGFVSASFVYFLTLQLDTQQTLLDTAGEKF 237
Query: 521 YISKLVRICHDDSNYYSYTEIPITCNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDV 580
+ SK+VR+C +D+ +YSY E P+ C S G +Y LVQA + KPG LA LG+ +DV
Sbjct: 238 FTSKIVRMCANDTEFYSYVEFPLGC-SKDGVEYRLVQAAHLAKPGLLLAQALGVPEDEDV 296
Query: 581 LFAVFAESEAPDGEGSNR--PKNSSALCIYPLASIRRKFMQNIKTCFSGQGNRGLDFI-S 637
LF +F++ + NR P + LC++ L++I + I++C+ G+G L ++ +
Sbjct: 297 LFTIFSQGQ------KNRASPPRETILCLFTLSNINAHIRERIQSCYRGEGTLSLPWLLN 350
Query: 638 PAHPCVQTKLQTIGEDFCGLDVNTPLGGENPIEAVAVLNFSVRCTA-VAATSTGDYTVVF 696
PC+ T +Q I +FCGL +N PLGG + IE + +L S A VAA + ++VVF
Sbjct: 351 KELPCINTPMQ-INGNFCGLVLNQPLGGLHVIEGLPLLADSTDGMASVAAYTYRQHSVVF 409
Query: 697 IGTDTGHLKKVVVETSSIAIEYGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
IGT +G LKKV V+ A Y V V + + D+ ++Y+++E++VS++ V+
Sbjct: 410 IGTRSGSLKKVRVDGFQDAHLYETVPVVDGSPILRDMVFSPDHRYIYLLSEKQVSQLPVE 469
>gnl|CDD|200533 cd11272, Sema_plexin_A2, The Sema domain, a protein interacting
module, of Plexin A2. Plexin A2 serves as a receptor
for class 6 semaphorins. Interactions between Plexin A2,
A4 and semaphorins 6A and 6B control the
lamina-restricted projection of hippocampal mossy
fibers. Sema6B also repels the growth of mossy fibers in
a Plexin A4 dependent manner. Plexin A2 does not
suppress Sema6B function. In addition, studies have
shown that Plexin A2 may be related to anxiety and other
psychiatric disorders. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 515
Score = 205 bits (522), Expect = 3e-56
Identities = 122/349 (34%), Positives = 197/349 (56%), Gaps = 29/349 (8%)
Query: 438 MYVGVTFTGNSPYRSEVPSIASRSL--DPERM----FQIADSAVTTGTRMFVNNLAR-ER 490
+++G G Y P+++SR L DPE +++ V++ ++ + LA
Sbjct: 145 LFIGTAVDGKQDY---FPTLSSRKLPRDPESSAMLDYELHSDFVSSLIKIPSDTLALVSH 201
Query: 491 YIINYVYGFSSEGFSYFLTTQLKSNIGTS-------FYISKLVRICHDDSNYYSYTEIPI 543
+ I Y+YGF+S F YFLT Q ++ G S FY S++VR+C DD ++SY +P
Sbjct: 202 FDIFYIYGFASGNFVYFLTVQPETPEGVSINSAGDLFYTSRIVRLCKDDPKFHSYVSLPF 261
Query: 544 TCNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSS 603
C G +Y L+QA ++ KPG LA L ITAQ+DVLFA+F++ + + + P + S
Sbjct: 262 GCVRG-GVEYRLLQAAYLSKPGEVLARSLNITAQEDVLFAIFSKGQ----KQYHHPPDDS 316
Query: 604 ALCIYPLASIRRKFMQNIKTCFSGQGNRGLDF-ISPAHPCVQTKLQTIGEDFCGLDVNTP 662
ALC +P+ +I + + +++C+ G+GN L++ + C + + I ++FCGLD+N P
Sbjct: 317 ALCAFPIRAINAQIKERLQSCYQGEGNLELNWLLGKDVQCTKAPV-PIDDNFCGLDINQP 375
Query: 663 LGGENPIEAVAVLNFSV-RCTAVAATSTGDYTVVFIGTDTGHLKKVVVE-TSSIAIEYGD 720
LGG P+E V + S R T+VA+ Y+VVF+GT +G LKK+ + ++Y
Sbjct: 376 LGGSTPVEGVTLYTSSRDRLTSVASYVYNGYSVVFVGTKSGKLKKIRADGPPHGGVQYEM 435
Query: 721 VKV-DENMTVNADLHLDSKAMHLYVMTERRVSKVKVQECKVYKTC--CL 766
V V + + D+ +LYVM+ER+VS+V V+ C+ Y TC CL
Sbjct: 436 VSVFKDGSPILRDMAFSIDHKYLYVMSERQVSRVPVESCEQYTTCGECL 484
Score = 50.3 bits (120), Expect = 1e-05
Identities = 24/56 (42%), Positives = 32/56 (57%), Gaps = 8/56 (14%)
Query: 1066 SDRQRNGKLSESNTQHSFTELVQTLTCWDCLNRKDPYCGWCSLDNKCSLRSDCQDA 1121
S+RQ + ES Q++ TC +CL+ DP+CGWC+L N CS R CQ A
Sbjct: 462 SERQVSRVPVESCEQYT--------TCGECLSSGDPHCGWCALHNMCSRRDKCQRA 509
>gnl|CDD|200532 cd11271, Sema_plexin_A1, The Sema domain, a protein interacting
module, of Plexin A1. Plexin A1 is found in both the
nervous and immune systems. Its external Sema domain is
also shared by semaphorin proteins. In the nervous
system, Plexin A1 mediates Sema3A axon guidance function
by interacting with the Sema3A coreceptor neuropilin,
resulting in actin depolarization and cell repulsion. In
the immune system, Plexin A1 mediates Sema6D signaling
by binding to the Sema6D-Trem2-DAP12 complex on immune
cells and osteoclasts to promote Rac activation and
DAP12 phosphorylation. In gene profiling experiments,
Plexin A1 was identified as a CIITA (class II
transactivator) regulated gene in primary dendritic
cells (DCs). The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 474
Score = 199 bits (507), Expect = 1e-54
Identities = 117/338 (34%), Positives = 187/338 (55%), Gaps = 28/338 (8%)
Query: 438 MYVGVTFTGNSPYRSEVPSIASRSL----DPERMFQIA--DSAVTTGTRMFVNNLAR-ER 490
++VG G S Y P+++SR L + MF D V++ ++ + L++
Sbjct: 146 LFVGTPIDGKSEY---FPTLSSRKLMANEENAEMFGFVYQDEFVSSQLKIPSDTLSKFPT 202
Query: 491 YIINYVYGFSSEGFSYFLTTQLKSNI------GTSFYISKLVRICHDDSNYYSYTEIPIT 544
+ I YVY FSSE F Y+LT QL + + G F+ SK+VR+C DD +YSY E PI
Sbjct: 203 FDIYYVYSFSSEQFVYYLTLQLDTQLTSPDSTGEQFFTSKIVRLCVDDPKFYSYVEFPIG 262
Query: 545 CNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSA 604
C G +Y L+Q ++ KPG LA LGI+ ++D+LF VF++ + + +P S
Sbjct: 263 C-EQDGVEYRLIQDAYLSKPGKALAKQLGISEREDILFTVFSQGQ----KNRVKPPKESV 317
Query: 605 LCIYPLASIRRKFMQNIKTCFSGQGNRGLDF-ISPAHPCVQTKLQTIGEDFCGLDVNTPL 663
LC++ L I+ K + I++C+ G+G L + ++ C+ + LQ I ++FCG D N PL
Sbjct: 318 LCLFTLKKIKDKIKERIQSCYRGEGKLSLPWLLNKELGCINSPLQ-IDDNFCGQDFNQPL 376
Query: 664 GGENPIEAVAV-LNFSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSS----IAIEY 718
GG IE + ++ T+VAA TVVF GT +G +KK++V+ S+ A++Y
Sbjct: 377 GGTVTIEGTPLFVDKEDGMTSVAAYDYRGRTVVFAGTRSGRIKKILVDLSAPSSRPALQY 436
Query: 719 GDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
+V E + DL L ++Y MTE++V++V V+
Sbjct: 437 ENVVAHEGSPILRDLVLSPDRQYIYAMTEKQVTRVPVE 474
>gnl|CDD|200537 cd11276, Sema_plexin_B2, The Sema domain, a protein interacting
module, of Plexin B2. Plexin B2 serves as the receptor
of Sema4C and Sema4G. By signaling the effect of Sema4C
and Sema4G, the plexin B2 receptor plays important roles
in neural tube closure and cerebellar granule cell
development. Mice lacking Plexin B2 demonstrated defects
in closure of the neural tube and disorganization of the
embryonic brain. In developing kidney, Sema4C-Plexin B2
signaling modulates ureteric branching. Plexin B2 is
expressed both in the pretubular aggregates and the
ureteric epithelium in the developing kidney. Deletion
of Plexin B2 results in renal hypoplasia and occasional
double ureters. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 449
Score = 181 bits (462), Expect = 6e-49
Identities = 119/390 (30%), Positives = 180/390 (46%), Gaps = 41/390 (10%)
Query: 385 LILCVS---GTCTVRSLQNISDIVQNV-----REAVVANNGNASTFAFIAPGPPKPPSTH 436
L++C S G C++R+L NIS+++ + V +N+ ST I+ P
Sbjct: 83 LVVCGSLFKGICSLRNLSNISEVIYYSDTSGEKSFVASNDEGVSTVGLISSLKPGNDR-- 140
Query: 437 VMYVGVTFTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIINYV 496
V +VG GN + I++R L ++ ++ + T V + RY +
Sbjct: 141 VFFVG---KGNGSNDNGK-IISTRLLQNYDDREVFENYIDAAT---VKSAYVSRYTQQFR 193
Query: 497 YGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSNSGKQYNLV 556
Y F + YFL Q + + R+C +D +YYSYTE+ + C + YN
Sbjct: 194 YAFEDNNYVYFLFNQ--QLGHPDKNRTLIARLCENDHHYYSYTEMDLNCRDGANA-YNKC 250
Query: 557 QAGFVGKPGSDLAGDLGITAQDD-VLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIRR 615
QA +V PG +LA + G + D VLFAVF+ E GE SALC++PL SI
Sbjct: 251 QAAYVSTPGKELAQNYGNSILSDKVLFAVFSRDEKDSGE--------SALCMFPLKSINA 302
Query: 616 KFMQNIKTCFSGQGNRGLDFISPAH-----PCVQTKLQTIGEDF-CGLD-VNTPLGGENP 668
K N + C++G + F P H C + Q + F CG + + PLG +
Sbjct: 303 KMEANREACYTGTIDDRDVFYKPFHSQKDIIC-GSHQQKNSKSFPCGSEHLPYPLGSRDE 361
Query: 669 -IEAVAVL-NFSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDEN 726
VL + TAV +TV F+GT G + KV + S EY + +++N
Sbjct: 362 LALTAPVLQRGGLNLTAVTVAVENGHTVAFLGTSDGRILKVHL--SPDPEEYNSILIEKN 419
Query: 727 MTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
VN DL LD HLY+MTE +V ++ VQ
Sbjct: 420 KPVNKDLVLDKTLEHLYIMTEDKVFRLPVQ 449
>gnl|CDD|200535 cd11274, Sema_plexin_A4, The Sema domain, a protein interacting
module, of Plexin A4. Plexin A4 forms a receptor
complex with neuropilins (NRPs) and transduces signals
for class 3 semaphorins in the nervous system. It
regulates facial nerve development by functioning as a
receptor for Sema3A/NRP1. Both plexins A3 and A4 are
essential for normal sympathetic development. They
function both cooperatively, to regulate the migration
of sympathetic neurons, and differentially, to guide
sympathetic axons. Plexin A4 is also expressed in
lymphoid tissues and functions in the immune system. It
negatively regulates T lymphocyte responses. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a ligand-recognition and -binding
module.
Length = 473
Score = 180 bits (459), Expect = 2e-48
Identities = 128/426 (30%), Positives = 209/426 (49%), Gaps = 50/426 (11%)
Query: 369 RVAAECKAPIYHTNPI------------LILCVS---GTCTVRSLQNISDIVQ--NVREA 411
R+ C P+ TN I LI C S G C + L ++ + + + +E
Sbjct: 61 RIVQTCNEPLTLTNNINKMLLIDYKENRLIACGSLYQGICKLLRLDDLFKLGEPFHKKEH 120
Query: 412 VVAN-NGNASTFAFIAPGPPKPPSTHVMYVGVTFTGNSPYRSEVPSIASRSL----DPER 466
++ N + S F I +++ G Y P+I+SR L + +
Sbjct: 121 YLSGVNESGSVFGVIVSYSNLDDK---LFIATAVDGKPEY---FPTISSRKLTKNSEADG 174
Query: 467 MFQIA--DSAVTTGTRMFVNNLAR-ERYIINYVYGFSSEGFSYFLTTQ--LKSNIGTS-- 519
MF D V + ++ + + I Y+YGFSS F YFLT Q + S G++
Sbjct: 175 MFAYVFHDEFVASMIKIPSDTFTIIPDFDIYYIYGFSSGNFVYFLTLQPEMISPPGSTTK 234
Query: 520 --FYISKLVRICHDDSNYYSYTEIPITCNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQ 577
Y SKLVR+C +D+ + SY E+PI C N G +Y L+QA ++ K G+ LA LG+
Sbjct: 235 EQVYTSKLVRLCKEDTAFNSYVEVPIGCEKN-GVEYRLLQAAYLSKAGAILARSLGVGPD 293
Query: 578 DDVLFAVFAESEAPDGEGSNRPKNS---SALCIYPLASIRRKFMQNIKTCFSGQGNRGLD 634
DD+LF VF++ G R S SALCI+ L I + +++C+ G+G L
Sbjct: 294 DDILFTVFSK-------GQKRKMKSLDESALCIFVLKEINDRIKDRLQSCYRGEGTLDLA 346
Query: 635 FISPAHPCVQTKLQTIGEDFCGLDVNTPLGGENPIEAVAVLNFSV-RCTAVAATSTGDYT 693
++ + L TI ++FCGLD+N PLG + + V R T+V A +++
Sbjct: 347 WLKVKDIPCSSALLTIDDNFCGLDMNAPLGVSEMVRGLPVFTEDRDRMTSVIAYVYKNHS 406
Query: 694 VVFIGTDTGHLKKVVVE-TSSIAIEYGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSK 752
+ F+GT +G LKK+ V+ T+ A++Y V+V + + D+ LY+M+E+++++
Sbjct: 407 LAFVGTKSGKLKKIRVDGTTKNALQYETVQVVDTGPILRDMAFSKDHEQLYIMSEKQLTR 466
Query: 753 VKVQEC 758
V V+ C
Sbjct: 467 VPVESC 472
>gnl|CDD|200506 cd11245, Sema_plexin_B, The Sema domain, a protein interacting
module, of Plexin B. Plexins, which contain semaphorin
domains, function as receptors of semaphorins and may be
the ancestors of semaphorins. There are three members of
the Plexin B subfamily, namely B1, B2 and B3. Plexins
B1, B2 and B3 are receptors for Sema4D, Sema4C and
Sema4G, and Sema5A, respectively. The activation of
plexin B1 by Sema4D produces an acute collapse of axonal
growth cones in hippocampal and retinal neurons over the
early stages of neurite outgrowth and promotes branching
and complexity. By signaling the effect of Sema4C and
Sema4G, the plexin B2 receptor is critically involved in
neural tube closure and cerebellar granule cell
development. Plexin B3, the receptor of Sema5A, is a
highly potent stimulator of neurite outgrowth of primary
murine cerebellar neurons. Plexin B3 has been linked to
verbal performance and white matter volume in human
brain. Small GTPases play important roles in plexin B
signaling. Plexin B1 activates Rho through Rho-specific
guanine nucleotide exchange factors, leading to neurite
retraction. Plexin B1 possesses an intrinsic
GTPase-activating protein activity for R-Ras and induces
growth cone collapse through R-Ras inactivation. The
Sema domain is located at the N-terminus and contains
four disulfide bonds formed by eight conserved cysteine
residues. It serves as a ligand-recognition and -binding
module.
Length = 440
Score = 173 bits (440), Expect = 3e-46
Identities = 113/391 (28%), Positives = 178/391 (45%), Gaps = 46/391 (11%)
Query: 385 LILCVS---GTCTVRSLQNISDIV-----QNVREAVVANNGNASTFAFIAPGPPKPPSTH 436
L++C S G C +R+L +++ + ++ V AN + ST I+
Sbjct: 77 LVVCGSLFQGVCELRNLNSVNKPLYRPETPGDKQYVAANEPSVSTVGLISYFKDGLS--- 133
Query: 437 VMYVGVTFTGNSPYRSEVPSIASRSL---DPERMFQIADSAVTTGTRMFVNNLARERYII 493
+++VG +T S +P I +R L F A RY
Sbjct: 134 LLFVGRGYT--SSLSGGIPPITTRLLQEHGEMDAFSNEVEAKLVVGSA-------SRYHH 184
Query: 494 NYVYGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSNSGKQY 553
++VY F+ G+ YFL ++ + S + + R+C +D +YYSY E+P+ C N Y
Sbjct: 185 DFVYAFADNGYIYFLFSR-RPGTADSTKRTYISRLCENDHHYYSYVELPLNCTVNQENTY 243
Query: 554 NLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASI 613
NLVQA ++ KPG VLF VF+ EA R SALC+YPL+S+
Sbjct: 244 NLVQAAYLAKPGK--------VLNGKVLFGVFSADEASTAAPDGR----SALCMYPLSSV 291
Query: 614 RRKFMQNIKTCFSGQGNRGLDFISPAHP-------CVQTKLQTIGEDFCGLD-VNTPLGG 665
+F + ++C++G+G D A+ C + + CG + +PL
Sbjct: 292 DARFERTRESCYTGEG-LEDDKPETAYIEYNVKSICKTLPDKNVKAYPCGAEHTPSPLAS 350
Query: 666 ENPIEAVAVLNFSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDE 725
P+ A +L + TAVA +T+ F+G G L KV ++ + Y + D+
Sbjct: 351 RYPLAAKPILTRNDMLTAVAVAVENGHTIAFLGDSGGQLHKVYLDPNH-TDFYSTIPGDQ 409
Query: 726 NMTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
+ VN DL DS HLYVMT +++SKV VQ
Sbjct: 410 DSAVNKDLLFDSTLNHLYVMTGKKISKVPVQ 440
>gnl|CDD|214747 smart00630, Sema, semaphorin domain.
Length = 390
Score = 152 bits (385), Expect = 2e-39
Identities = 66/319 (20%), Positives = 111/319 (34%), Gaps = 57/319 (17%)
Query: 438 MYVGVTFTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIINYVY 497
+YVG + + S++ R L + V ++ N+VY
Sbjct: 94 LYVGTVADFSGSDPAIPRSLSVRRLKGTSGVSL----------RTVLYDSKWLNEPNFVY 143
Query: 498 GFSSEGFSYFLTTQLKS--NIGTSFYISKLVRICHDD--------SNYYSYTEIPITC-- 545
F S F YF + + S++ R+C +D + S+ + + C
Sbjct: 144 AFESGDFVYFFFRETAVEDDNCGKAVHSRVARVCKNDVGGPRSLDKKWTSFLKARLECSV 203
Query: 546 NSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSAL 605
+N +QA F+ PGS+ DDVL+ VF+ S + P SA+
Sbjct: 204 PGEDPFYFNELQAAFLLPPGSE---------SDDVLYGVFSTS--------SNPIPGSAV 246
Query: 606 CIYPLASIRRKFMQNIKTCFSGQGN-----RGLDFISPAHPCVQTKLQT----IGEDFCG 656
C + L+ I F K C + RG C +
Sbjct: 247 CAFSLSDINAVFNGPFKECETSTSQWLPYSRGKVPYPRPGTCPNKPPSSKDLPDETLNFI 306
Query: 657 LDVNTPLGGENPIEAVAVLNF---SVRCTAVAAT---STGDYTVVFIGTDTGHLKKVVVE 710
P+ + + T++A + G+YTV+F+GT G + KVV+
Sbjct: 307 KSHPLMDEVVQPLTGRPLFVKTDSNYLLTSIAVDRVATDGNYTVLFLGTSDGRILKVVLS 366
Query: 711 TSSIAIEYGDVKVDENMTV 729
SS + V E ++V
Sbjct: 367 ESS---SSSESVVLEEISV 382
>gnl|CDD|200536 cd11275, Sema_plexin_B1, The Sema domain, a protein interacting
module, of Plexin B1. Plexin B1 serves as the
Semaphorin 4D receptor and functions as a regulator of
developing neurons and a tumor suppressor protein for
melanoma. The Sema4D-plexin B signaling complex
regulates dendritic and axonal complexity. The
activation of Plexin B1 by Sema4D produces an acute
collapse of axonal growth cones in hippocampal and
retinal neurons over the early stages of neurite
outgrowth and promotes branching and complexity. As a
tumor suppressor, plexin B1 abrogates activation of the
oncogenic receptor, c-Met, by its ligand, hepatocyte
growth factor (HGF), in melanoma. Furthermore, plexin B1
suppresses integrin-dependent migration and activation
of pp125FAK and inhibits Rho activity. Plexin B1 is
highly expressed in endothelial cells and its activation
by Sema4D elicits a potent proangiogenic response. The
Sema domain is located at the N-terminus and contains
four disulfide bonds formed by eight conserved cysteine
residues. It serves as a ligand-recognition and -binding
module.
Length = 461
Score = 153 bits (387), Expect = 4e-39
Identities = 116/396 (29%), Positives = 180/396 (45%), Gaps = 43/396 (10%)
Query: 385 LILCVS---GTCTVRSLQNISDIVQNVR-----EAVVANNGNASTFAFIAPGPPKPPSTH 436
LI+C S G C R L +I ++ + V AN+ N +T +A P
Sbjct: 83 LIVCGSVHQGICEKRRLGSIDHVLFRPERPGDTQYVAANDPNVTTVGLVAYSKDGVP--- 139
Query: 437 VMYVGVTFTGNSPYRSEVPSIASRSL--------DPERMFQIADSAVTTGTRMFVNNLAR 488
+++VG +T +P I +R+L D +F ++A ++ V L+
Sbjct: 140 LLFVGRGYTSRG-VGGGIPPITTRNLRAHGDDATDSHSIFSYEETA-----KLAVGRLSE 193
Query: 489 ERYIINYVYGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSN 548
Y +++ F+ YFL + + Y + + RIC DDS+YYSY E+P+ C S
Sbjct: 194 --YNHHFIKAFTYGSSVYFLFYRRDLKSQSREYKTYISRICLDDSHYYSYVELPLLCQSK 251
Query: 549 SGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIY 608
+ Y+L+QA +V +PG LA + +VLFA F+ +A G+ S SALC Y
Sbjct: 252 ANT-YSLLQAAYVTQPGERLAQGQ-LDTDGEVLFAAFSAWQASSGKLSE----ESALCAY 305
Query: 609 PLASIRRKFMQNIKTCFSGQGNRGLDFISPAH-------PCVQTKLQTIGEDFCGLD-VN 660
P+ + R C++ G + D A+ CVQ T+ CG D
Sbjct: 306 PMDEVDRLTNWTRDVCYTRDG-KAEDGTEVAYIEYDVSSNCVQLPADTLDAYPCGSDHTP 364
Query: 661 TPLGGENPIEAVAVLNF-SVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYG 719
+P+ P+EA +L + +R TAVA +T+ F+G G L KV + A Y
Sbjct: 365 SPMASRVPLEATPLLEWTEIRLTAVAVNVEDGHTIAFLGDSRGRLHKVYLGAGGDAHTYS 424
Query: 720 DVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKV 755
+ +N V+ DL D HLYVMT+ V KV +
Sbjct: 425 SQSIQQNSAVSGDLLFDQLQEHLYVMTQSTVLKVPI 460
>gnl|CDD|200538 cd11277, Sema_plexin_B3, The Sema domain, a protein interacting
module, of Plexin B3. Plexin B3 is the receptor of
semaphorin 5A. It is a highly potent stimulator of
neurite outgrowth of primary murine cerebellar neurons.
Plexin B3 has been linked to verbal performance and
white matter volume in human brain. Furthermore, Sema5A
and plexin B3 have been implicated in the progression of
various types of cancer. They play an important role in
the invasion and metastasis of gastric carcinoma. The
stimulation of plexin B3 by Sema5A binding in human
glioma cells results in the inhibition of cell migration
and invasion. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
ligand-recognition and -binding module.
Length = 434
Score = 135 bits (341), Expect = 3e-33
Identities = 105/389 (26%), Positives = 164/389 (42%), Gaps = 56/389 (14%)
Query: 385 LILC---VSGTCTVRSLQNISDIVQNVREA-----VVANNGNASTFAFIAPGPPKPPSTH 436
L+ C G C R L N++ ++ + V AN+ +T + P
Sbjct: 83 LVACGQVRQGVCEKRRLGNVAQVLYQAEDPGDGQFVAANDPGVATVGLVVE----APGRD 138
Query: 437 VMYVGVTFTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIINYV 496
++ VG TG + +P + R L + F S+ G ++ V + + Y +YV
Sbjct: 139 LLLVGRGLTGKLS--AGIPPLTIRQLAGAQAF----SSEGLG-KLVVGDFSD--YNNSYV 189
Query: 497 YGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSNSGKQYNLV 556
F+ G+ YFL + + + Y + + R+C D+N YSY E+P+ C YNL
Sbjct: 190 GAFAHNGYVYFLFRRRGAR-AQAEYRTYVARVCLGDTNLYSYVEVPLVCQGG----YNLA 244
Query: 557 QAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIRRK 616
QA ++ L F VFA + P + +ALC YPL +
Sbjct: 245 QAAYLAPGQGTL-------------FVVFAAGQGSTPT----PTDQTALCAYPLVELDSA 287
Query: 617 FMQNIKTCFSGQGNRGLDFISPAH-------PCVQTKLQTIGEDFCGLDVNTP--LGGEN 667
+ + C++ G G + A CV + CG D +TP +
Sbjct: 288 MERARRLCYT-AGGGGPNGKEEATIEYGVTSRCVNLPKDSPESYPCG-DEHTPSPIASRQ 345
Query: 668 PIEAVAVLNFSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENM 727
P+EA +L + TAVAA +T+ F+G G L KV + S+ Y V
Sbjct: 346 PLEAEPLLTLTPPLTAVAALQEDGHTIAFLGDTQGQLHKVFLNGSA-GQVYSSQPVGPPG 404
Query: 728 T-VNADLHLDSKAMHLYVMTERRVSKVKV 755
+ VN DL LD+ HLYV+T R+V+KV V
Sbjct: 405 SAVNPDLLLDATGSHLYVLTARQVTKVPV 433
>gnl|CDD|200509 cd11248, Sema_MET_like, The Sema domain, a protein interacting
module, of MET and RON receptor tyrosine kinases. This
family includes MET and RON receptor tyrosine kinases.
MET is encoded by the c-met protooncogene. MET is the
receptor for hepatocyte growth factor/scatter factor
(HGF/SF). HGF/SF and MET regulates multiple cellular
events and are essential for the development of several
tissues and organs, including the placenta, liver, and
several groups of skeletal muscles. RON receptor
tyrosine kinase is a Macrophage-stimulating protein
(MSP) receptor. Upon binding of MSP, RON is activated
via autophosphorylation within its kinase catalytic
domain, resulting in a variety of effects including
proliferation, tubular morphogenesis, angiogenesis,
cellular motility and invasiveness. By interacting with
downstream signaling molecules, it regulates macrophage
migration, phagocytosis, and nitric oxide production.
MET and RON receptors have been implicated in cancer
development and migration. They are composed of
alpha-beta heterodimers. The extracellular alpha chain
is disulfide linked to the beta chain, which contains an
extracellular ligand-binding region with a Sema domain,
a PSI domain and four IPT repeats, a transmembrane
segment, and an intracellular catalytic tyrosine kinase
domain. The Sema domain is necessary for receptor
dimerization and activation.
Length = 467
Score = 124 bits (312), Expect = 2e-29
Identities = 90/329 (27%), Positives = 151/329 (45%), Gaps = 27/329 (8%)
Query: 444 FTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIINYVYGFSSEG 503
F NS S S S+ R+ + ++ + + V R+ Y I YVY F S
Sbjct: 150 FVANSVNSSLAGSFPPHSISVRRLKEDGFGFLSDQSYLDVLPSLRDSYPIKYVYSFHSGP 209
Query: 504 FSYFLTTQLKS-NIGTSFYISKLVRICHDDSNYYSYTEIPITC---------NSNSGKQY 553
F YFLT Q +S +S + ++LVR+C DS + Y E+P+ C ++ Y
Sbjct: 210 FVYFLTVQRESLTKPSSAFHTRLVRLCSSDSEIWRYREMPLECIFTPKRRRRSTEEDVVY 269
Query: 554 NLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASI 613
N++QA V K G+DLA +LG + DD+LF VFA S+ S P +SALC +P+ +
Sbjct: 270 NVLQAAHVSKVGADLADELGASEGDDILFGVFARSK----PDSGEPMPNSALCAFPIKYV 325
Query: 614 RRKFMQNIKTCFSG---QGNRGLDFISPAHPCVQTKLQTIGEDFCGLDVNTPLGGENPIE 670
+ ++ C + + L P C + E C P +
Sbjct: 326 NDAIEKGVEKCCTSGLEHFSGSLCHFQPCPTCPGE--SSSCEATCK---EYRTEVTKPYQ 380
Query: 671 AVAVLN---FSVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENM 727
V + N +V T++ T+ G++TV +GT G + +VV+ + S I + + +D
Sbjct: 381 RVDLFNGQMSNVLLTSILVTTIGNHTVAHLGTSDGRVLQVVL-SRSGPIPHVNFSLDS-Q 438
Query: 728 TVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
V+ ++ + S L +T +++KV +
Sbjct: 439 PVSREVAVLSSNGSLLFVTGDKITKVPLI 467
>gnl|CDD|238585 cd01180, IPT_plexin_repeat1, First repeat of the IPT domain of
Plexins and Cell Surface Receptors (PCSR) . Plexins are
involved in the regulation of cell proliferation and of
cellular adhesion and repulsion receptors. In general,
there are three copies of the IPT domain present
preceeded by SEMA (semaphorin) and PSI (plexin,
semaphorin, integrin) domains.
Length = 94
Score = 103 bits (259), Expect = 5e-26
Identities = 40/95 (42%), Positives = 50/95 (52%), Gaps = 3/95 (3%)
Query: 916 PEITSFQPKSGPWEGGTNVTINGINLGKTFKDIYGGVSVAGITCQPYESLYNRTTQIVCQ 975
P IT F P SGP EGGT +TI G NLG D+ GV V G+ C P Y+ + +IVC
Sbjct: 1 PVITEFFPLSGPLEGGTRLTICGSNLGLRKNDVRHGVRVGGVPCNPEPPEYSSSEKIVCT 60
Query: 976 VDGPGTRGSREGPVIVKIED--FRGQSKDNYQFVD 1008
G GPV V + FR +S + + FVD
Sbjct: 61 TGPAGN-PVFNGPVEVTVGHGSFRTESSEGFSFVD 94
Score = 37.7 bits (88), Expect = 0.007
Identities = 27/93 (29%), Positives = 34/93 (36%), Gaps = 12/93 (12%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGSRIEA-----FIDDLPCRITSVE---PEMAH 1060
PVI PL GP GGT L I GS N G R + +PC E E
Sbjct: 1 PVITEFFPLSGPLEGGTRLTICGS--NLGLRKNDVRHGVRVGGVPCNPEPPEYSSSEKIV 58
Query: 1061 CVTSASDRQ-RNGKLSESNT-QHSFTELVQTLT 1091
C T + NG + + TE + +
Sbjct: 59 CTTGPAGNPVFNGPVEVTVGHGSFRTESSEGFS 91
>gnl|CDD|200539 cd11278, Sema_MET, The Sema domain, a protein interacting module,
of MET (also called hepatocyte growth factor receptor,
HGFR). MET is encoded by the c-met protooncogene. MET
is a receptor tyrosine kinase that binds its ligand,
hepatocyte growth factor/scatter factor (HGF/SF). HGF/SF
and MET are essential for the development of several
tissues and organs, including the placenta, liver, and
several groups of skeletal muscles. It also plays a
major role in the abnormal migration of cancer cells as
a result of overexpression or MET mutations. MET is
composed of an alpha-beta heterodimer. The extracellular
alpha chain is disulfide linked to the beta chain, which
contains an extracellular ligand-binding region with a
Sema domain, a PSI domain and four IPT repeats, a
transmembrane segment, and an intracellular catalytic
tyrosine kinase domain. The cytoplasmic C-terminal
region acts as a docking site for multiple protein
substrates, including Grb2, Gab1, STAT3, Shc, SHIP-1 and
Src. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. The Sema domain of Met is necessary
for receptor dimerization and activation.
Length = 492
Score = 112 bits (282), Expect = 2e-25
Identities = 86/301 (28%), Positives = 136/301 (45%), Gaps = 53/301 (17%)
Query: 439 YVGVTFTGNSPYRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLA--RERYIINYV 496
+VG T + + SI+ R R+ + D + +++ L R+ Y I YV
Sbjct: 172 FVGNTINSSYFPDHPLHSISVR-----RLKETQDGFEFLTDQSYIDVLPEFRDSYPIKYV 226
Query: 497 YGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITC--------NSN 548
+ F S F YFLT Q +S + + + ++++R C DS SY E+P+ C S
Sbjct: 227 HAFESNNFVYFLTVQRES-LDSQTFHTRIIRFCSIDSELRSYMEMPLECIFTEKRRKRST 285
Query: 549 SGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIY 608
+ +N++QA +V KPG+ LA ++G + DD+LF VFA+S+ PD S P N SA+C
Sbjct: 286 KKEVFNILQAAYVSKPGAQLAREMGASLNDDILFGVFAQSK-PD---SAEPMNRSAVCAV 341
Query: 609 PLASIRRKF-----MQNIKTC---FSGQGNRGLDFISPAHPCVQTKLQTIGEDFCGLDVN 660
+ +I F QN+K C F G+ + C +C +
Sbjct: 342 SIKTINEFFNKIVDKQNVK-CLQHFYGKNHE---------HCFNRTFLR-NASYCEARRD 390
Query: 661 TPLGGENPIEAVAVL--------NFS-VRCTAVAATSTGDYTVVFIGTDTGHLKKVVVET 711
E +E L FS V T+++ + GD T+ +GT G +VVV
Sbjct: 391 -----EYRVEVTTALQRVDLFMGQFSNVLLTSISVFTKGDLTIANLGTSEGRFMQVVVSR 445
Query: 712 S 712
S
Sbjct: 446 S 446
>gnl|CDD|200540 cd11279, Sema_RON, The Sema domain, a protein interacting module,
of RON Receptor Tyrosine Kinase. RON receptor tyrosine
kinase is a Macrophage-stimulating protein (MSP)
receptor. Upon binding of MSP, RON is activated via
autophosphorylation within its kinase catalytic domain,
resulting in a wide range of effects, including
proliferation, tubular morphogenesis, angiogenesis,
cellular motility and invasiveness. By interacting with
downstream signaling molecules, it regulates macrophage
migration, phagocytosis, and nitric oxide production.
RON has been implicated in cancers of the breast, colon,
pancreas and ovaries because both splice variants and
receptor overexpression have been identified in these
tumors. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. It serves as ligand recognition and
binding model. RON is composed of an alpha-beta
heterodimer. The extracellular alpha chain is disulfide
linked to the beta chain, which contains an
extracellular ligand-binding region with a Sema domain,
a PSI domain and four IPT repeats, a transmembrane
segment, and an intracellular catalytic tyrosine kinase
domain. The Sema domain of RON may be necessary for
receptor dimerization and activation.
Length = 493
Score = 112 bits (282), Expect = 2e-25
Identities = 70/247 (28%), Positives = 110/247 (44%), Gaps = 30/247 (12%)
Query: 488 RERYIINYVYGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCN- 546
+ Y I+YV+ F+S F YFLT Q + +S Y ++LVR+ + Y E+ + C
Sbjct: 214 LDSYPIHYVHSFTSGDFVYFLTVQ-PESPDSSAYHTRLVRLSAKEPELRDYRELVLDCRF 272
Query: 547 ----------SNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGS 596
+ YN++QA GS LA +LGI+ +VLF VFAES+ GS
Sbjct: 273 EPKRRRRRRPAEREVPYNVLQAAHAAPVGSKLAVELGISEGQEVLFGVFAESQ----PGS 328
Query: 597 NRPKNSSALCIYPLASIRRKFMQNIKTCFSGQGN----RGLDFISPAHPCVQTKLQTIGE 652
P+ +SA+C +P++ + + ++ C S + RGLDF P C
Sbjct: 329 PVPQKNSAVCAFPISLLNEAIDEGMEKCCSSSNSDRLFRGLDFFQPQSYCP----HPPNL 384
Query: 653 DFCGLDV---NTPLGGENPIEAVAVLN---FSVRCTAVAATSTGDYTVVFIGTDTGHLKK 706
+ N P V + N V T++ T + TV +GT G + +
Sbjct: 385 SAAVSNTSCWNFPTLVSTSSFRVDLFNGHLSGVLLTSIYVTVLDNVTVAHLGTSDGRILQ 444
Query: 707 VVVETSS 713
VV++ S
Sbjct: 445 VVLQRSL 451
>gnl|CDD|238584 cd01179, IPT_plexin_repeat2, Second repeat of the IPT domain of
Plexins and Cell Surface Receptors (PCSR) . Plexins are
involved in the regulation of cell proliferation and of
cellular adhesion and repulsion receptors. In general,
there are three copies of the IPT domain present
preceeded by SEMA (semaphorin) and PSI (plexin,
semaphorin, integrin) domains.
Length = 85
Score = 82.7 bits (205), Expect = 9e-19
Identities = 27/78 (34%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 21 TKGPRSGGTILHISGSHMNAGSRIEAFIDDLPCRITSVEPEMAHCVTSASDRQRNGKLSM 80
+ GP+SGGT L I+G H+NAGS + + PC+I SV C+T S + +
Sbjct: 9 SYGPQSGGTRLTITGKHLNAGSSVRVTVGGQPCKILSVSSSQIVCLTPPSASPGEAPVKV 68
Query: 81 KFDKGTRFFDGSLYEYVE 98
D G R ++ Y E
Sbjct: 69 LID-GARRLAPLVFTYTE 85
Score = 81.5 bits (202), Expect = 2e-18
Identities = 26/58 (44%), Positives = 34/58 (58%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGSRIEAFIDDLPCRITSVEPEMAHCVTSAS 1066
P I S+ P GP+SGGT L I+G H+NAGS + + PC+I SV C+T S
Sbjct: 1 PSITSLSPSYGPQSGGTRLTITGKHLNAGSSVRVTVGGQPCKILSVSSSQIVCLTPPS 58
Score = 48.0 bits (115), Expect = 1e-06
Identities = 30/95 (31%), Positives = 45/95 (47%), Gaps = 14/95 (14%)
Query: 916 PEITSFQPKSGPWEGGTNVTINGINL--GKTFKDIYGGVSVAGITCQPYESLYNRT-TQI 972
P ITS P GP GGT +TI G +L G + + V+V G C+ + + + +QI
Sbjct: 1 PSITSLSPSYGPQSGGTRLTITGKHLNAGSSVR-----VTVGGQPCK----ILSVSSSQI 51
Query: 973 VCQVDGPGTRGSREGPVIVKIEDFRGQSKDNYQFV 1007
VC + P E PV V I+ R + + +
Sbjct: 52 VC-LTPPSASPG-EAPVKVLIDGARRLAPLVFTYT 84
Score = 35.7 bits (83), Expect = 0.028
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 232 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPA 273
LTI G+HL+ S V V +G C + SVS Q+ C P
Sbjct: 19 LTITGKHLNAGSS---VRVTVGGQPCKILSVSSSQIVCLTPP 57
Score = 35.7 bits (83), Expect = 0.028
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 1494 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPA 1535
LTI G+HL+ S V V +G C + SVS Q+ C P
Sbjct: 19 LTITGKHLNAGSS---VRVTVGGQPCKILSVSSSQIVCLTPP 57
>gnl|CDD|238337 cd00603, IPT_PCSR, IPT domain of Plexins and Cell Surface Receptors
(PCSR) and related proteins . This subgroup contains IPT
domains of plexins, receptors, like the
plasminogen-related growth factor receptors, the
hepatocyte growth factor-scatter factors, and the
macrophage-stimulating receptors and of fibrocystin.
Plexins are involved in the regulation of cell
proliferation and of cellular adhesion and repulsion
receptors. In general, there are three copies of the
IPT_PCSR domain present preceeded by SEMA (semaphorin)
and PSI (plexin, semaphorin, integrin) domains.
Length = 90
Score = 74.4 bits (183), Expect = 7e-16
Identities = 35/97 (36%), Positives = 48/97 (49%), Gaps = 11/97 (11%)
Query: 916 PEITSFQPKSGPWEGGTNVTINGINLGKTFKDIYGGVSVAGITCQPYESLYNRTTQIVCQ 975
P ITS P SGP GGT +TI G NLG + V+V G+ C+ +T+IVC+
Sbjct: 1 PVITSISPSSGPLSGGTRLTITGSNLGSGSPRV--RVTVGGVPCKVLNV---SSTEIVCR 55
Query: 976 VDGPGTRGSREGPVIVKIE----DFRGQSKDNYQFVD 1008
T G EGPV V ++ R S + +V+
Sbjct: 56 TPAAATPG--EGPVEVTVDGANVSARVLSNTTFTYVE 90
Score = 60.2 bits (146), Expect = 8e-11
Identities = 26/68 (38%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGS-RIEAFIDDLPCRITSVEPEMAHCVTSASD 1067
PVI SI P GP SGGT L I+GS++ +GS R+ + +PC++ +V C T A+
Sbjct: 1 PVITSISPSSGPLSGGTRLTITGSNLGSGSPRVRVTVGGVPCKVLNVSSTEIVCRTPAAA 60
Query: 1068 RQRNGKLS 1075
G +
Sbjct: 61 TPGEGPVE 68
Score = 54.4 bits (131), Expect = 8e-09
Identities = 25/82 (30%), Positives = 41/82 (50%), Gaps = 4/82 (4%)
Query: 21 TKGPRSGGTILHISGSHMNAGS-RIEAFIDDLPCRITSVEPEMAHCVTSASDRQRNGKLS 79
+ GP SGGT L I+GS++ +GS R+ + +PC++ +V C T A+ G +
Sbjct: 9 SSGPLSGGTRLTITGSNLGSGSPRVRVTVGGVPCKVLNVSSTEIVCRTPAAATPGEGPVE 68
Query: 80 MKFD---KGTRFFDGSLYEYVE 98
+ D R + + YVE
Sbjct: 69 VTVDGANVSARVLSNTTFTYVE 90
Score = 37.8 bits (88), Expect = 0.006
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 232 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPAEQPPNKNDDDESTAELPD 291
LTI G +L S V V +G C V +VS ++ CR PA P E T + +
Sbjct: 19 LTITGSNLGSGSP--RVRVTVGGVPCKVLNVSSTEIVCRTPAAATPG-EGPVEVTVDGAN 75
Query: 292 VTVIVGNNLKF 302
V+ V +N F
Sbjct: 76 VSARVLSNTTF 86
Score = 37.8 bits (88), Expect = 0.006
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 1494 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPAEQPPNKNDDDESTAELPD 1553
LTI G +L S V V +G C V +VS ++ CR PA P E T + +
Sbjct: 19 LTITGSNLGSGSP--RVRVTVGGVPCKVLNVSSTEIVCRTPAAATPG-EGPVEVTVDGAN 75
Query: 1554 VTVIVGNNLKF 1564
V+ V +N F
Sbjct: 76 VSARVLSNTTF 86
>gnl|CDD|200508 cd11247, Sema_plexin_D1, The Sema domain, a protein interacting
module, of Plexin D1. Plexins are known as semaphorin
receptors and Plexin D1 has been identified as the
receptor of Sema3E. It binds to Sema3E directly with
high affinity. Sema3E is implicated in axonal path
finding and inhibition of developmental and
post-ischemic angiogenesis. Plexin D1 is broadly
expressed on tumor vessels and tumor cells in a number
of different types of human tumors. Plexin D1-Sema3E
interaction inhibits tumor growth but promotes
invasiveness and metastasis. The Sema domain is located
at the N-terminus and contains four disulfide bonds
formed by eight conserved cysteine residues. It serves
as a ligand-recognition and -binding module.
Length = 483
Score = 82.2 bits (203), Expect = 1e-15
Identities = 101/436 (23%), Positives = 160/436 (36%), Gaps = 105/436 (24%)
Query: 384 ILILCVS---GTCTVRSLQNIS----------DIVQNVREAVVANNGNASTFAFIAP--G 428
+L++C S G C +R L NIS D V V AN+ NAST + G
Sbjct: 88 VLVVCGSIYQGLCQLRRLYNISAVAVRFPVDGDTVFPSMLNVAANHPNASTVGLVLWPRG 147
Query: 429 PPKPPSTHVMYVGVTFTGNSP-----------YRSE-VPSIASRSLDP----ERMFQIAD 472
+ VG T+TG +R E P IA R+L+ ++F D
Sbjct: 148 GGGGLR---LLVGATYTGYGSGFFPRNRSLEDHRFENTPEIAIRALNTRGDLAKLFTF-D 203
Query: 473 SAVTTGTRMFVNNLARERYIINYVYGF---SSEGFSYF-LTTQLKSNIGTSFYISKLVRI 528
+ + A+ R+ +++V F + ++Y + + + S S L RI
Sbjct: 204 INPSDDNIFKIKQGAKARHKLSFVRAFLQHFLQPYAYLAMNGEANAAGKESQPPSLLARI 263
Query: 529 CHDDSN----------YYSYTEIPITCNSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQD 578
C SY ++ + C + L ++
Sbjct: 264 CLPGRAPPPPGEAKKLTESYIQLGLRC----------------EGAYTRLVSVFPARVEE 307
Query: 579 DVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIRRKFMQNIKTCFSGQGNRGLDFISP 638
+ LFAVF + +ALC + A + CF ++
Sbjct: 308 EQLFAVFERAG----------GAPAALCAFRFAEVEEPIRAARTACFVSPAA---GVVTV 354
Query: 639 AHPCVQ-----------TKLQTIGEDFCGL-DVNTPLGGENPIEAVAVLNFSVRCTAVAA 686
VQ +LQ D CG + PL P++A V T+VA
Sbjct: 355 LDSVVQGTGPACERKLNIQLQPEQLD-CGAAHLQHPLAILQPLKATPVFRAP-GLTSVAV 412
Query: 687 TSTGDYTVVFIGTDTGHLKKV-------VVETSSIAIEYGDVKVDENMTVNADLHLDSKA 739
S +YTVVF+GT +G L K+ VV S+ + YG+ V M + S +
Sbjct: 413 ASVNNYTVVFLGTVSGRLLKINLDESMQVVSRRSVTVAYGE-PVHHVMQFDP-----SDS 466
Query: 740 MHLYVMTERRVSKVKV 755
+LY+MT ++++VKV
Sbjct: 467 TYLYLMTSHQMTRVKV 482
>gnl|CDD|216480 pfam01403, Sema, Sema domain. The Sema domain occurs in
semaphorins, which are a large family of secreted and
transmembrane proteins, some of which function as
repellent signals during axon guidance. Sema domains
also occur in the hepatocyte growth factor receptor and
human plexin A-3.
Length = 435
Score = 73.9 bits (182), Expect = 3e-13
Identities = 61/264 (23%), Positives = 94/264 (35%), Gaps = 49/264 (18%)
Query: 491 YIINYVYGFSSEGFSYFLTTQ-LKSNIGTSFYISKLVRICHDDSNYYSYTEIPITC---- 545
Y I+YV+ S+ YF + + S++ R+C +D SY E+
Sbjct: 173 YPIHYVH-SFSDDKVYFFFRETAVEDSNCKAIHSRVARVCKNDPGGRSYLELNKWTTFLK 231
Query: 546 ---------NSNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGS 596
+N +QA FV G+D VL+ VF S GS
Sbjct: 232 ARLNCSVPGREGIPFYFNELQAAFVLPTGADTD---------PVLYGVFTTSS-NSSAGS 281
Query: 597 NRPKNSSALCIYPLASIRR----KFMQNIKTCFSGQGNRGLDFISPAHP--CVQTKLQTI 650
A+C + ++ I + F + S P P C +
Sbjct: 282 -------AVCAFSMSDINQVFNGPFKHQ-EGPNSKWLPYRGKVPYPR-PGQCPNASNGDL 332
Query: 651 GEDFCGLDVNTPLGGE--NPIEAVAVLNFS---VRCTAVAATST----GDYTVVFIGTDT 701
+D PL E P+ V + R T++A G YTV+F+GTD
Sbjct: 333 PDDTLNFIRCHPLMDEVVPPLHNVPLFVGQSGNYRLTSIAVDRVEAGDGQYTVLFLGTDD 392
Query: 702 GHLKKVVVETSSIAIEYGDVKVDE 725
G + K VV + S + Y V ++E
Sbjct: 393 GRVLKQVVLSRSSSASYEVVVLEE 416
>gnl|CDD|238050 cd00102, IPT, Immunoglobulin-like fold, Plexins, Transcription
factors (IPT). IPTs are also known as Transcription
factor ImmunoGlobin (TIG) domains. They are present in
intracellular transcription factors, cell surface
receptors (such as plexins and scatter factor receptors),
as well as, cyclodextrin glycosyltransferase and similar
enzymes. Although they are involved in DNA binding in
transcription factors, their function in other proteins
is unknown. In these transcription factors, IPTs form
homo- or heterodimers with the exception of the nuclear
factor of activated Tcells (NFAT) transcription factors
which are mainly monomers.
Length = 89
Score = 60.9 bits (148), Expect = 5e-11
Identities = 31/97 (31%), Positives = 38/97 (39%), Gaps = 12/97 (12%)
Query: 916 PEITSFQPKSGPWEGGTNVTINGINLGKTFKDIYGGVSV-AGITCQPYESLYNRTTQIVC 974
P ITS P SGP GGT VTI G N G V+ G+ C +T IVC
Sbjct: 1 PVITSISPSSGPVSGGTEVTITGSNFGSGSN---LRVTFGGGVPCSVLSV---SSTAIVC 54
Query: 975 QVDGPGTRGSREGPVIVKIE---DFRGQSKDNYQFVD 1008
P GPV V ++ S + +V
Sbjct: 55 TT--PPYANPGPGPVEVTVDRGNGGITSSPLTFTYVP 89
Score = 55.5 bits (134), Expect = 3e-09
Identities = 25/66 (37%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGSRIEA-FIDDLPCRITSVEPEMAHCVTSASD 1067
PVI SI P GP SGGT + I+GS+ +GS + F +PC + SV C T
Sbjct: 1 PVITSISPSSGPVSGGTEVTITGSNFGSGSNLRVTFGGGVPCSVLSVSSTAIVCTTPPYA 60
Query: 1068 RQRNGK 1073
G
Sbjct: 61 NPGPGP 66
Score = 47.8 bits (114), Expect = 2e-06
Identities = 23/81 (28%), Positives = 34/81 (41%), Gaps = 3/81 (3%)
Query: 21 TKGPRSGGTILHISGSHMNAGSRIEA-FIDDLPCRITSVEPEMAHCVTSASDRQRNGKLS 79
+ GP SGGT + I+GS+ +GS + F +PC + SV C T G +
Sbjct: 9 SSGPVSGGTEVTITGSNFGSGSNLRVTFGGGVPCSVLSVSSTAIVCTTPPYANPGPGPVE 68
Query: 80 MKFD--KGTRFFDGSLYEYVE 98
+ D G + YV
Sbjct: 69 VTVDRGNGGITSSPLTFTYVP 89
Score = 33.2 bits (76), Expect = 0.22
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 232 LTINGQHLDRASQESDVIVKIGTGF-CNVTSVSRLQLTCRPPA 273
+TI G + S++ V G G C+V SVS + C P
Sbjct: 19 VTITGSNFG---SGSNLRVTFGGGVPCSVLSVSSTAIVCTTPP 58
Score = 33.2 bits (76), Expect = 0.22
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 1494 LTINGQHLDRASQESDVIVKIGTGF-CNVTSVSRLQLTCRPPA 1535
+TI G + S++ V G G C+V SVS + C P
Sbjct: 19 VTITGSNFG---SGSNLRVTFGGGVPCSVLSVSSTAIVCTTPP 58
Score = 29.7 bits (67), Expect = 4.7
Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 15/71 (21%)
Query: 100 PTIDSVDSGIQSGQGLKYPKGFPAGGTRINVVGKNLLYIKDPHIYV-VYKDKKFVNSCEV 158
P I S+ G +GGT + + G N + + ++
Sbjct: 1 PVITSISP----------SSGPVSGGTEVTITGSNFGSGSNLRVTFGGGVPCSVLSV--- 47
Query: 159 MSNNYMICTAP 169
S+ ++CT P
Sbjct: 48 -SSTAIVCTTP 57
>gnl|CDD|200495 cd09295, Sema, The Sema domain, a protein interacting module, of
semaphorins and plexins. Both semaphorins and plexins
have a Sema domain on their N-termini. Plexins function
as receptors for the semaphorins. Evolutionarily,
plexins may be the ancestor of semaphorins. Semaphorins
are regulatory molecules in the development of the
nervous system and in axonal guidance. They also play
important roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems,
and cancer. Semaphorins can be divided into 7 classes.
Vertebrates have members in classes 3-7, whereas classes
1 and 2 are known only in invertebrates. Class 2 and 3
semaphorins are secreted; classes 1 and 4 through 6 are
transmembrane proteins; and class 7 is membrane
associated via glycosylphosphatidylinositol (GPI)
linkage. Plexins are a large family of transmembrane
proteins, which are divided into four types (A-D)
according to sequence similarity. In vertebrates, type A
plexins serve as co-receptors for neuropilins to mediate
the signalling of class 3 semaphorins. Plexins serve as
direct receptors for several other members of the
semaphorin family: class 6 semaphorins signal through
type A plexins and class 4 semaphorins through type B
plexins. This family also includes the MET and RON
receptor tyrosine kinases. The Sema domain is located at
the N-terminus and contains four disulfide bonds formed
by eight conserved cysteine residues. It serves to
recognize and bind receptors.
Length = 392
Score = 66.5 bits (162), Expect = 7e-11
Identities = 58/283 (20%), Positives = 90/283 (31%), Gaps = 79/283 (27%)
Query: 493 INYVYGFSS---EGFSYFLTTQ--LKSNIGTSFYISKLVRICHDDSN--------YYSYT 539
I +VY F S + YF Q ++ Y+ ++ R+C D S+
Sbjct: 170 ITFVYAFVSGDDDDEVYFFFRQEPVEYLKKGMVYVPRIARVCKLDVGGCHRLKKKLTSFL 229
Query: 540 EIPITCN-SNSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNR 598
+ + C+ SG +NL+Q DV FA+F+ E
Sbjct: 230 KADLNCSRPQSGFAFNLLQDATGDTKNLI----------QDVKFAIFSSCLNKSVE---- 275
Query: 599 PKNSSALCIYPLASIRRKFMQNIKTCFSGQGNRGLDFISPAHPCVQTKLQTIGEDFCGLD 658
SA+C Y I F
Sbjct: 276 ----SAVCAYLFTDINNVF----------------------------------------- 290
Query: 659 VNTPLGGENPIEAVAVLNFSVRCTAVA----ATSTGDYTVVFIGTDTGHLKKVVVETSSI 714
+ P+ N A N R T++A + Y VVF+G G L K +
Sbjct: 291 -DDPVEAINNRPLYAHQNQRSRLTSIAVDATKQKSVGYQVVFLGLKLGSLGKALAFFFLY 349
Query: 715 AIE-YGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQ 756
+ KV ++ + +L L ++LYV +E V V VQ
Sbjct: 350 KGHIIEEWKVFKDSSRITNLDLSRPPLYLYVGSESGVLGVPVQ 392
>gnl|CDD|214657 smart00429, IPT, ig-like, plexins, transcription factors.
Length = 90
Score = 59.4 bits (144), Expect = 2e-10
Identities = 26/75 (34%), Positives = 34/75 (45%), Gaps = 5/75 (6%)
Query: 915 NPEITSFQPKSGPWEGGTNVTINGINLGKTFKDIYGGVSVAGITCQPYESLYNRTTQIVC 974
+P IT P SGP GGT +T+ G NL K+ ++ V V C S +T IVC
Sbjct: 1 DPVITRISPTSGPVSGGTEITLCGKNL-KSISVVFVEVGVGEAPCTFSPS---SSTAIVC 56
Query: 975 QVDGPGTRGSREGPV 989
+ P PV
Sbjct: 57 KT-PPYHNIPGSVPV 70
Score = 46.3 bits (110), Expect = 7e-06
Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 1008 DPVIKSIQPLQGPRSGGTILHISGSHMNAGSRIEAFIDD--LPCRITSVEPEMAHCVTSA 1065
DPVI I P GP SGGT + + G ++ + S + + PC + C T
Sbjct: 1 DPVITRISPTSGPVSGGTEITLCGKNLKSISVVFVEVGVGEAPCTFSPSSSTAIVCKTPP 60
Query: 1066 S 1066
Sbjct: 61 Y 61
Score = 35.9 bits (83), Expect = 0.028
Identities = 16/81 (19%), Positives = 28/81 (34%), Gaps = 4/81 (4%)
Query: 21 TKGPRSGGTILHISGSHMNAGSRIEAFIDD--LPCRITSVEPEMAHCVTSASDR-QRNGK 77
T GP SGGT + + G ++ + S + + PC + C T +
Sbjct: 10 TSGPVSGGTEITLCGKNLKSISVVFVEVGVGEAPCTFSPSSSTAIVCKTPPYHNIPGSVP 69
Query: 78 LS-MKFDKGTRFFDGSLYEYV 97
+ + G + YV
Sbjct: 70 VRTVGLRNGGVPSSPQPFTYV 90
Score = 34.3 bits (79), Expect = 0.090
Identities = 18/77 (23%), Positives = 25/77 (32%), Gaps = 16/77 (20%)
Query: 99 DPTIDSVDSGIQSGQGLKYPKGFPAGGTRINVVGKNLLYIKDPHIYVVYKDK--KFVNSC 156
DP I + G +GGT I + GKNL I + V + F S
Sbjct: 1 DPVITRISP----------TSGPVSGGTEITLCGKNLKSISVVFVEVGVGEAPCTFSPSS 50
Query: 157 EVMSNNYMICTAPTITG 173
++C P
Sbjct: 51 STA----IVCKTPPYHN 63
Score = 31.2 bits (71), Expect = 1.3
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 232 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPA 273
+T+ G++L S V V +G C + S + C+ P
Sbjct: 20 ITLCGKNLKSISVVF-VEVGVGEAPCTFSPSSSTAIVCKTPP 60
Score = 31.2 bits (71), Expect = 1.3
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 1494 LTINGQHLDRASQESDVIVKIGTGFCNVTSVSRLQLTCRPPA 1535
+T+ G++L S V V +G C + S + C+ P
Sbjct: 20 ITLCGKNLKSISVVF-VEVGVGEAPCTFSPSSSTAIVCKTPP 60
>gnl|CDD|238586 cd01181, IPT_plexin_repeat3, Third repeat of the IPT domain of
Plexins and Cell Surface Receptors (PCSR) . Plexins are
involved in the regulation of cell proliferation and of
cellular adhesion and repulsion receptors. In general,
there are three copies of the IPT domain present
preceeded by SEMA (semaphorin) and PSI (plexin,
semaphorin, integrin) domains.
Length = 99
Score = 56.7 bits (137), Expect = 2e-09
Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 4/86 (4%)
Query: 119 KGFPAGGTRINVVGKNLLYIKDPHIYVVYKDKKFVNSCEVMSNNYMICTAPTITGALDKI 178
F +GGT I V G NL +++P I V Y SC+V ++ M C AP++
Sbjct: 10 WSFLSGGTPITVTGTNLNTVQEPRIRVKY-GGVEKTSCKVRNSTLMTCPAPSLALLNRSP 68
Query: 179 DE-EHPEQLEYGFEMDNVTSVRNLSS 203
+ E P E+G + DNV S+ L+
Sbjct: 69 EPGERPV--EFGLDGDNVQSLLILNR 92
Score = 30.5 bits (69), Expect = 2.5
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGS--RIEAFIDD 1046
P I I+P SGGT + ++G+++N RI
Sbjct: 1 PTITRIEPEWSFLSGGTPITVTGTNLNTVQEPRIRVKYGG 40
>gnl|CDD|216504 pfam01437, PSI, Plexin repeat. A cysteine rich repeat found in
several different extracellular receptors. The function
of the repeat is unknown. Three copies of the repeat are
found Plexin. Two copies of the repeat are found in
mahogany protein. A related C. elegans protein contains
four copies of the repeat. The Met receptor contains a
single copy of the repeat. The Pfam alignment shows 6
conserved cysteine residues that may form three conserved
disulphide bridges, whereas shows 8 conserved cysteines.
The pattern of conservation suggests that cysteines 5 and
7 (that are not absolutely conserved) form a disulphide
bridge (Personal observation. A Bateman).
Length = 48
Score = 52.2 bits (125), Expect = 2e-08
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 5/47 (10%)
Query: 1091 TCWDCLNRKDPYCGWCSLDNKCSLRSDCQDAAKDPLSWISYKSGRCT 1137
+C CL +DPYCGWCS + +C+ ++C + S+ S +C
Sbjct: 7 SCSSCLAARDPYCGWCSSEGRCTRGTECPRS-----EGPSWSSSKCP 48
Score = 44.1 bits (104), Expect = 1e-05
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 3/51 (5%)
Query: 864 RCRDLANNCGLCLALPEKYGCGWCQSSKRCEIFEQCDKGLGTWLNRNHTCP 914
C +C CLA + CGWC S RC +C + + CP
Sbjct: 1 NCSQY-TSCSSCLAARD-PYCGWCSSEGRCTRGTECPRS-EGPSWSSSKCP 48
>gnl|CDD|216730 pfam01833, TIG, IPT/TIG domain. This family consists of a domain
that has an immunoglobulin like fold. These domains are
found in cell surface receptors such as Met and Ron as
well as in intracellular transcription factors where it
is involved in DNA binding. CAUTION: This family does not
currently recognise a significant number of members.
Length = 84
Score = 50.9 bits (122), Expect = 1e-07
Identities = 30/91 (32%), Positives = 40/91 (43%), Gaps = 7/91 (7%)
Query: 916 PEITSFQPKSGPWEGGTNVTINGINLGKTFKDIYGGVSVAGITCQPYESLYNRTTQIVCQ 975
P ITS P +GP GGT +TI G N G +D V+ G C S+ +TQIVC
Sbjct: 1 PVITSISPATGPASGGTTITITGSNFGTDSEDTK--VTFGGTECTVIVSV--SSTQIVCT 56
Query: 976 VDGPGTRGSREGPVIVKIEDFRGQSKDNYQF 1006
G G+ V V + S + +
Sbjct: 57 TP-AGAAGT--VSVSVTVNGGLSSSPVTFTY 84
Score = 42.4 bits (100), Expect = 1e-04
Identities = 27/84 (32%), Positives = 34/84 (40%), Gaps = 9/84 (10%)
Query: 1009 PVIKSIQPLQGPRSGGTILHISGSHMNAGS-RIEAFIDDLPCRIT-SVEPEMAHCVTSAS 1066
PVI SI P GP SGGT + I+GS+ S + C + SV C T A
Sbjct: 1 PVITSISPATGPASGGTTITITGSNFGTDSEDTKVTFGGTECTVIVSVSSTQIVCTTPAG 60
Query: 1067 DR-------QRNGKLSESNTQHSF 1083
NG LS S ++
Sbjct: 61 AAGTVSVSVTVNGGLSSSPVTFTY 84
Score = 39.3 bits (92), Expect = 0.001
Identities = 22/79 (27%), Positives = 27/79 (34%), Gaps = 14/79 (17%)
Query: 232 LTINGQHLDRASQESDVIVKIGTGFCNVT-SVSRLQLTCRPPAEQPPNKNDDDESTAELP 290
+TI G + S D V G C V SVS Q+ C PA A
Sbjct: 19 ITITGSNFGTDS--EDTKVTFGGTECTVIVSVSSTQIVCTTPA-----------GAAGTV 65
Query: 291 DVTVIVGNNLKFYIGKLSY 309
V+V V L +Y
Sbjct: 66 SVSVTVNGGLSSSPVTFTY 84
Score = 39.3 bits (92), Expect = 0.001
Identities = 22/79 (27%), Positives = 27/79 (34%), Gaps = 14/79 (17%)
Query: 1494 LTINGQHLDRASQESDVIVKIGTGFCNVT-SVSRLQLTCRPPAEQPPNKNDDDESTAELP 1552
+TI G + S D V G C V SVS Q+ C PA A
Sbjct: 19 ITITGSNFGTDS--EDTKVTFGGTECTVIVSVSSTQIVCTTPA-----------GAAGTV 65
Query: 1553 DVTVIVGNNLKFYIGKLSY 1571
V+V V L +Y
Sbjct: 66 SVSVTVNGGLSSSPVTFTY 84
Score = 32.0 bits (73), Expect = 0.59
Identities = 16/79 (20%), Positives = 25/79 (31%), Gaps = 12/79 (15%)
Query: 100 PTIDSVDSGIQSGQGLKYPKGFPAGGTRINVVGKNLLYIKDPHIYVVYKDKKFVNSCEVM 159
P I S+ G +GGT I + G N V + + V
Sbjct: 1 PVITSIS----------PATGPASGGTTITITGSNFGTD-SEDTKVTFGGTECTVIVSV- 48
Query: 160 SNNYMICTAPTITGALDKI 178
S+ ++CT P +
Sbjct: 49 SSTQIVCTTPAGAAGTVSV 67
Score = 30.9 bits (70), Expect = 1.4
Identities = 19/78 (24%), Positives = 28/78 (35%), Gaps = 4/78 (5%)
Query: 21 TKGPRSGGTILHISGSHMNAGS-RIEAFIDDLPCRIT-SVEPEMAHCVTSASDRQRNGKL 78
GP SGGT + I+GS+ S + C + SV C T A +
Sbjct: 9 ATGPASGGTTITITGSNFGTDSEDTKVTFGGTECTVIVSVSSTQIVCTTPAGAAG-TVSV 67
Query: 79 SMKFDKGTRFFDGSLYEY 96
S+ + G + Y
Sbjct: 68 SVTVN-GGLSSSPVTFTY 84
>gnl|CDD|213328 cd04519, RasGAP, Ras GTPase Activating Domain. RasGAP functions as
an enhancer of the hydrolysis of GTP that is bound to
Ras-GTPases. Proteins having a RasGAP domain include
p120GAP, IQGAP, Rab5-activating protein 6, and
Neurofibromin, among others. Although the Rho (Ras
homolog) GTPases are most closely related to members of
the Ras family, RhoGAP and RasGAP exhibit no similarity
at their amino acid sequence level. RasGTPases function
as molecular switches in a large number of signaling
pathways. They are in the on state when bound to GTP, and
in the off state when bound to GDP. The RasGAP domain
speeds up the hydrolysis of GTP in Ras-like proteins
acting as a negative regulator.
Length = 256
Score = 54.4 bits (131), Expect = 2e-07
Identities = 26/160 (16%), Positives = 53/160 (33%), Gaps = 15/160 (9%)
Query: 1986 KEGERSNKMVSEIYLTRLLATKGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQ 2045
+ E L L + V+ L + I S+ R LP ++Y+F L +
Sbjct: 104 ESKESCEIDTKLPVGEDLEENLENLLELVNKLVDRILSSLDR---LPPELRYVFKILREF 160
Query: 2046 ALNHGITDPEVVHTWKSNSLPLRFWVNLIKNPN--FVFDIHKSNIVDSCLSVVAQTFMDS 2103
+P+ + S L LRF I +P + S L+++++
Sbjct: 161 LAERFPEEPDEAYQAVSGFLFLRFICPAIVSPELFGLVPDEPSEQARRNLTLISKVLQSL 220
Query: 2104 CSTSDHRLGKDSPSSKLLYAKDIPAYKEWVERYYSDIKSM 2143
+ K + K + ++++ +K
Sbjct: 221 ANGV-------EFGDKEPFMKPL---NDFIKSNKPKLKQF 250
>gnl|CDD|214655 smart00423, PSI, domain found in Plexins, Semaphorins and Integrins.
Length = 47
Score = 47.5 bits (113), Expect = 7e-07
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 1091 TCWDCLNRKDPYCGWCSLDNKCSLRSDC 1118
+C +CL +DPYC WCS +C+ C
Sbjct: 7 SCSECLLARDPYCAWCSSQGRCTSGERC 34
Score = 46.4 bits (110), Expect = 2e-06
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 864 RCRDLANNCGLCLALPEKYGCGWCQSSKRCEIFEQCDKGLGTWLNRNHTCP 914
RC +C CL + Y C WC S RC E+CD WL+ CP
Sbjct: 1 RCS-KYTSCSECLLARDPY-CAWCSSQGRCTSGERCDSRRQNWLSG--GCP 47
Score = 28.3 bits (63), Expect = 4.3
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 1234 DCNTYSSCTQCVSSDFP 1250
C+ Y+SC++C+ + P
Sbjct: 1 RCSKYTSCSECLLARDP 17
>gnl|CDD|200496 cd11235, Sema_semaphorin, The Sema domain, a protein interacting
module, of semaphorins. Semaphorins are regulator
molecules in the development of the nervous system and
in axonal guidance. They also play important roles in
other biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. They can be
divided into 7 classes. Vertebrates have members in
classes 3-7, whereas classes 1 and 2 are known only in
invertebrates. Class 2 and 3 semaphorins are secreted
proteins; classes 1 and 4 through 6 are transmembrane
proteins; and class 7 is membrane associated via
glycosylphosphatidylinositol (GPI) linkage. The
semaphorins exert their function through their
receptors, the neuropilin and plexin families. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 437
Score = 43.6 bits (103), Expect = 0.001
Identities = 22/77 (28%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 684 VAATSTGDYTVVFIGTDTGHLKKVV--VETSSIAIEYGDVK--VDENMTVNADLHLDSKA 739
V A Y V+F+GTD G + KVV E A + + + L K
Sbjct: 362 VQAKLGQTYDVLFVGTDRGIILKVVSLPEQGLQASNILEEMPVGPPPEPIQT-MQLSRKR 420
Query: 740 MHLYVMTERRVSKVKVQ 756
LYV +E V +V +
Sbjct: 421 RSLYVGSETGVLQVPLA 437
>gnl|CDD|200515 cd11254, Sema_3F, The Sema domain, a protein interacting module, of
semaphorin 3F (Sema3F). Sema3F is coexpressed with
semaphorin3B. Both Sema3B and Sema3F proteins are
candidate tumor suppressors that are down-regulated in
highly metastatic tumors. Two receptor families, the
neuropilins and plexins, have been implicated in
mediating the actions of semaphorins 3B and 3F. Sema3F
is a member of the class 3 semaphorin family of
proteins. Semaphorins are regulatory molecules in the
development of the nervous system and in axonal
guidance. They also play important roles in other
biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 470
Score = 43.3 bits (102), Expect = 0.002
Identities = 27/93 (29%), Positives = 46/93 (49%), Gaps = 12/93 (12%)
Query: 676 NFSVRCTAVAA----TSTGDYTVVFIGTDTGHLKKVVV------ETSSIAIEYGDVKVDE 725
N + R T +A + G Y V+F+GTD G ++KV+V ET + +E +V+V +
Sbjct: 380 NVNYRFTTIAVDQVDAADGRYEVLFLGTDRGTVQKVIVLPKDDLETEELTLE--EVEVFK 437
Query: 726 NMTVNADLHLDSKAMHLYVMTERRVSKVKVQEC 758
+ + SK LYV + V+ + + C
Sbjct: 438 VPAPIKTMKISSKRQQLYVSSAVGVTHLSLHRC 470
>gnl|CDD|200512 cd11251, Sema_3C, The Sema domain, a protein interacting module, of
semaphorin 3C (Sema3C). Sema3C is a secreted semaphorin
expressed in and adjacent to cardiac neural crest cells,
and causes impaired migration of neural crest cells to
the developing cardiac outflow tract, resulting in the
interruption of the aortic arch and persistent truncus
arteriosus. It has been proposed that Sema3C acts as a
guidance molecule, regulating migration of neural crest
cells that express semaphorin receptors such as plexin
A2. Sema3C may also participate in tumor progression.
The cleavage of Sema3C induced by ADAMTS1 promotes the
migration of breast cancer cells. Sema3C is a member of
the class 3 semaphorin family of secreted proteins.
Semaphorins are regulatory molecules in the development
of the nervous system and in axonal guidance. They also
play important roles in other biological processes, such
as angiogenesis, immune regulation, respiration systems
and cancer. The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 470
Score = 41.8 bits (98), Expect = 0.004
Identities = 26/88 (29%), Positives = 48/88 (54%), Gaps = 10/88 (11%)
Query: 680 RCTAVA----ATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDE-----NMTVN 730
+ T +A + G Y V+F+GTD G ++KVVV ++ ++ G++ ++E N
Sbjct: 384 KYTKIAVDRVNAADGRYHVLFLGTDKGTVQKVVVLPTNGSLS-GELILEELEVFKNHAPI 442
Query: 731 ADLHLDSKAMHLYVMTERRVSKVKVQEC 758
++ + SK LYV +E +S+V + C
Sbjct: 443 TNMKISSKKQQLYVSSEEGISQVSLHRC 470
>gnl|CDD|200500 cd11239, Sema_3, The Sema domain, a protein interacting module, of
class 3 semaphorins. Class 3 semaphorins (Sema3s) are
secreted regulator molecules involved in the development
of the nervous system, vasculogenesis, angiogenesis,and
tumorigenesis. There are 7 distinct subfamilies named
Sema3A to 3G. Sema3s function as repellent signals
during axon guidance by repelling neurons away from the
source of Sema3s. However, Sema3s that are secreted by
tumor cells play an inhibitory role in tumor growth and
angiogenesis (specifically Sema3B and Sema3F). Sema3s
functions by forming complexes with neuropilins and
A-type plexins, where neuropilins serve as the ligand
binding moiety and the plexins function as signal
transduction component. Sema3s primarily inhibit the
cell motility and migration of tumor and endothelial
cells by inducing collapse of the actin cytoskeleton via
neuropilins and plexins. The Sema domain is located at
the N-terminus and contains four disulfide bonds formed
by eight conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 471
Score = 39.3 bits (92), Expect = 0.028
Identities = 47/222 (21%), Positives = 80/222 (36%), Gaps = 64/222 (28%)
Query: 577 QDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIRRKFMQNIK-------------- 622
++ +++ VF S SN K SA+C+Y +A IR F
Sbjct: 274 KNPLIYGVFTTS-------SNVFK-GSAVCVYSMADIRAAFNGPFAHKEGPNYQWVEYQG 325
Query: 623 --------TCFSGQGNRGLD----------FISPAHPCVQTKLQTIGEDFCGLDVNTPLG 664
TC S + +HP + + PL
Sbjct: 326 KVPYPRPGTCPSKTYGPLYKSTKDFPDDVISFARSHPLMY-------------NPVYPLH 372
Query: 665 GENPIEAVAVLNFSVRCTAV--AATSTGDYTVVFIGTDTGHLKKVVV------ETSSIAI 716
G P+ + + + AV G Y V+FIGTD+G + KVV E + +
Sbjct: 373 GR-PLLIRTNVPYRLTQIAVDRVEAEDGQYDVLFIGTDSGTVLKVVSLPKENWEMEEVIL 431
Query: 717 EYGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQEC 758
E +++V ++ + + + SK LYV + V ++ + C
Sbjct: 432 E--ELQVFKHPSPITSMEISSKRQQLYVGSAEGVVQLPLHRC 471
>gnl|CDD|200511 cd11250, Sema_3B, The Sema domain, a protein interacting module, of
semaphorin 3B (Sema3B). Sema3B is coexpressed with
semaphorin 3F and both proteins are candidate tumor
suppressors. Both Sema3B and Sema3F show high levels of
expression in normal tissues and low-grade tumors but
are down-regulated in highly metastatic tumors in the
lung, melanoma cells, bladder carcinoma cells and
prostate carcinoma. They are upregulated by estrogen and
inhibit cell motility and invasiveness through decreased
FAK phosphorylation and inhibition of MMP-2 and MMP-9
expression. Two receptor families, the neuropilins (NP)
and plexins, have been implicated in mediating the
actions of semaphorins 3B and 3F. Sema3B is a member of
the class 3 semaphorin family of proteins. Semaphorins
are regulatory molecules in the development of the
nervous system and in axonal guidance. They also play
important roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems and
cancer. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. It serves as a receptor-recognition
and -binding module.
Length = 471
Score = 38.4 bits (89), Expect = 0.053
Identities = 29/107 (27%), Positives = 50/107 (46%), Gaps = 12/107 (11%)
Query: 661 TPLGGENPIEAVAVLNFSVRCTAV--AATSTGDYTVVFIGTDTGHLKKVV-------VET 711
PLGG P+ + ++ AV A + G Y V+FIGTD G + KV+
Sbjct: 368 LPLGGR-PLFLRTGIPYTFTQIAVDRVAAADGHYDVMFIGTDVGSVLKVISVPKGSWPSN 426
Query: 712 SSIAIEYGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKVQEC 758
+ +E ++ V ++ + + + SK LYV + VS++ + C
Sbjct: 427 EELLLE--ELHVFKDSSPITSMQISSKRQQLYVGSRSGVSQLPLHRC 471
>gnl|CDD|200514 cd11253, Sema_3E, The Sema domain, a protein interacting module, of
semaphorin 3E (Sema3E). Sema3E is a secreted molecule
implicated in axonal path finding and inhibition of
developmental and postischemic angiogenesis. It is also
highly expressed in metastatic cancer cells. Sema3E
signaling, through its high affinity functional receptor
Plexin D1, drives cancer cell invasiveness and
metastatic spreading. Sema3E is a member of the class 3
semaphorin family of proteins. Semaphorins are
regulatory molecules in the development of the nervous
system and in axonal guidance. They also play important
roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems and
cancer. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. It serves as a receptor-recognition
and -binding module.
Length = 471
Score = 36.4 bits (84), Expect = 0.20
Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 11/77 (14%)
Query: 690 GDYTVVFIGTDTGHLKKVVV----ETSS----IAIEYGDVKVDENMTVNADLHLDSKAMH 741
G Y V+FIGTD G + KV+ ET + I E KV + + + SK
Sbjct: 398 GQYDVLFIGTDNGIVLKVITIYNQETETMEEVILEELQVFKVPVPII---SMEISSKRQQ 454
Query: 742 LYVMTERRVSKVKVQEC 758
LY+ +E V++++ +C
Sbjct: 455 LYIGSESGVAQIRFHQC 471
>gnl|CDD|173430 PTZ00140, PTZ00140, sexual stage antigen s45/48; Provisional.
Length = 447
Score = 35.9 bits (83), Expect = 0.24
Identities = 31/129 (24%), Positives = 48/129 (37%), Gaps = 22/129 (17%)
Query: 126 TRINVVGKNLLYIKDPHIYVVYKDKKFVNSCEVMSNNYMICTAPTITGALDKID------ 179
++ + KNLL K P Y + D SC+V + Y I P T +D D
Sbjct: 247 SKKGFLHKNLLIFKAP-AYFLSNDVCTECSCKVNNTPYKIVLKPQKTKKIDGCDFTKPKG 305
Query: 180 ----------EEHPEQLEYGFEMDNVTSVRNLSSKLNSPYFLFP-----NPIYEPFSEEI 224
+ + + V++ N + + PY L P + +YE S E+
Sbjct: 306 KGDYTNGFDIADLGSSEKITCTIHLVSTKYNHLAGIKCPYKLIPTYCFQHVLYEKESPEL 365
Query: 225 KYYKSDYLT 233
K YK L
Sbjct: 366 KPYKPFLLD 374
>gnl|CDD|200501 cd11240, Sema_4, The Sema domain, a protein interacting module, of
class 4 semaphorins (Sema4). Class 4 semaphorins
(Sema4s) are transmembrane regulator molecules involved
in the development of the nervous system, immune
response, cytoskeletal organization, angiogenesis, and
cell-cell interactions. There are 7 distinct subfamilies
in class 4 semaphorins, named 4A to 4G. Several class 4
subfamilies play important roles in the immune system
and are called "immune semaphorins". Sema4A plays
critical roles in T cell-DC interactions in the immune
response. Sema4D/CD100, expressed by lymphocytes,
promotes the aggregation and survival of B lymphocytes
and inhibits cytokine-induced migration of immune cells
in vitro. It is required for normal activation of B and
T lymphocytes. Sema4B negatively regulates basophil
functions through T cell-basophil contacts and
significantly inhibits IL-4 and IL-6 production from
basophils in response to various stimuli, including IL-3
and papain. Sema4s not only influence the activation
state of cells but also modulate their migration and
survival. The effects of Sema4s on nonlymphoid cells are
mediated by plexin D1 and plexin Bs. The Sema4G and
Sema4C genes are expressed in the developing cerebellar
cortex and are involved in neural tube closure and
development of cerebellar granules cells through
receptor plexin B2. The Sema domain is located at the
N-terminus and contains four disulfide bonds formed by
eight conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 456
Score = 35.5 bits (82), Expect = 0.41
Identities = 62/291 (21%), Positives = 113/291 (38%), Gaps = 59/291 (20%)
Query: 496 VYGFSSEGFSYFLTTQLKSNIGTSFYISKLVRICHDD--------SNYYSYTEIPITCNS 547
+Y F +E T ++ + +S++ R+C D + ++ + + C+
Sbjct: 193 IYFFFTE-------TAVEYDFYEKVTVSRVARVCKGDLGGQRTLQKKWTTFLKAQLVCSQ 245
Query: 548 -NSGKQYNLVQAGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALC 606
+SG +N+++ FV P S + + VF + + SA+C
Sbjct: 246 PDSGLPFNVLRDVFVLSPDS---------WDATIFYGVFTS------QWNV--SGLSAVC 288
Query: 607 IYPLASIRRKFMQNIKTCFSGQGNRGLDFISPA-HP----CV--QTKLQTIGEDFCGLDV 659
Y L I++ F K F+ + ++ + P P C+ + Q I D
Sbjct: 289 AYSLEDIKKVFSGKYKE-FNRETSKWSRYTGPVPDPRPGACITNSARSQGITSSLNLPD- 346
Query: 660 NT-------PLGGE--NPIEAVAVLNFSVRCTAVAATST-----GDYTVVFIGTDTGHLK 705
N PL E +PI ++ V T +A YTV+F+GT+ G L
Sbjct: 347 NVLTFVKDHPLMDEQVHPINRPLLVKSGVNYTRIAVHRVQALDGQTYTVLFLGTEDGFLH 406
Query: 706 KVVVETSSIAI-EYGDVKVDENMTVNADLHLDSKAMHLYVMTERRVSKVKV 755
K V + I E ++++ + +L L S LYV + V +V +
Sbjct: 407 KAVSLDGGMHIIE--EIQLFDQPQPVKNLLLSSSKGVLYVGSSSGVVQVPL 455
>gnl|CDD|200516 cd11255, Sema_3G, The Sema domain, a protein interacting module, of
semaphorin 3G (Sema3G). Semaphorin 3G is identified as
a primarily endothelial cell- expressed class 3
semaphorin that controls endothelial and smooth muscle
cell functions in autocrine and paracrine manners,
respectively. It is mainly expressed in the lung and
kidney, and a little in the brain. Semaphorins are
regulatory molecules in the development of the nervous
system and in axonal guidance. They also play important
roles in other biological processes, such as
angiogenesis, immune regulation, respiration systems and
cancer. The Sema domain is located at the N-terminus and
contains four disulfide bonds formed by eight conserved
cysteine residues. It serves as a receptor-recognition
and -binding module.
Length = 474
Score = 34.9 bits (80), Expect = 0.56
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 690 GDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENMTVNA-----DLHLDSKAMHLYV 744
G Y V+FIGTD+G + KV+V + +V ++E ++ + K LYV
Sbjct: 401 GYYDVMFIGTDSGSVLKVIVLQKGNSAAGEEVTLEELQVFKVPTPITEMEISVKRQMLYV 460
Query: 745 MTERRVSKVKVQEC 758
+ V++V + C
Sbjct: 461 GSRTGVAQVPLHRC 474
>gnl|CDD|232880 TIGR00220, mscL, large conductance mechanosensitive channel protein.
Protein encodes a channel which opens in response to a
membrane stretch force. Probably serves as an osmotic
gauge. Carboxy terminus tends to be more divergent across
species with a high degree of sequence conservation found
at the N-terminus [Cellular processes, Adaptations to
atypical conditions].
Length = 127
Score = 32.5 bits (74), Expect = 0.73
Identities = 35/118 (29%), Positives = 49/118 (41%), Gaps = 13/118 (11%)
Query: 1554 VTVIVGNNLKFYIGKLSYSPPAALNSPLTKTAIVGKLSYSPPAALNSPLTKTAMYGGIAI 1613
V V++G GK+ S A + PL ++G + +S + YG
Sbjct: 19 VGVVIGGAF----GKIVSSLVADIIMPLLGL-LLGGIDFSGLSFTLQDAQAVGKYGEFIQ 73
Query: 1614 ITILFLIFIAFLIAYRRKSTENTRVLKNMQEQMDILELRVAAECKEAFAELQTEITDL 1671
I FLI IAF I K+ R K ++E+ AAE +A L TEI DL
Sbjct: 74 NIINFLI-IAFAIFMIIKAINKLRRKKKVEEE-------AAAEAPDAQENLLTEIRDL 123
>gnl|CDD|216808 pfam01957, NfeD, NfeD-like C-terminal, partner-binding. NfeD-like
proteins are widely distributed throughout prokaryotes
and are frequently associated with genes encoding
stomatin-like proteins (slipins). There appear to be
three major groups: an ancestral group with only an
N-terminal serine protease domain and this C-terminal
beta sheet-rich domain which is structurally very similar
to the OB-fold domain, associated with its neighboring
slipin cluster; a second major group with an additional
middle, membrane-spanning domain, associated in some
species with eoslipin and in others with yqfA; a final
'artificial' group which unites truncated forms lacking
the protease region and associated with their ancestral
gene partner, either yqfA or eoslipin. This NefD,
C-terminal, domain appears to be the major one for
relating to the associated protein. NfeD homologues are
clearly reliant on their conserved gene neighbor which is
assumed to be necessary for function, either through
direct physical interaction or by functioning in the same
pathway, possibly involve with lipid-rafts.
Length = 144
Score = 32.7 bits (75), Expect = 0.95
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 1585 AIVGKLSYSPPAALNSPLTKTAMYGGIAIITILFLIFIAFLIAYRRKSTENTRVLKNMQE 1644
++G L P A ++ + +AI++ L+F+AF + YRR T R + E
Sbjct: 30 LVIGALLLFPTGAPGYGISWGLILV-LAIVSFALLLFVAFAV-YRRLLTRKKRKVDTGLE 87
Query: 1645 QM 1646
+
Sbjct: 88 AL 89
Score = 32.3 bits (74), Expect = 1.3
Identities = 19/72 (26%), Positives = 29/72 (40%), Gaps = 10/72 (13%)
Query: 292 VTVIVGNNLKFYIGKLSYSPPAALNSPLTKTAMYGGIAIITILFLIFIAFLIAYRRKSTE 351
+++G L F G Y L L AI++ L+F+AF + YRR T
Sbjct: 28 AALVIGALLLFPTGAPGYGISWGLILVL---------AIVSFALLLFVAFAV-YRRLLTR 77
Query: 352 NTRVLKNMQEQM 363
R + E +
Sbjct: 78 KKRKVDTGLEAL 89
>gnl|CDD|148332 pfam06667, PspB, Phage shock protein B. This family consists of
several bacterial phage shock protein B (PspB)
sequences. The phage shock protein (psp) operon is
induced in response to heat, ethanol, osmotic shock and
infection by filamentous bacteriophages. Expression of
the operon requires the alternative sigma factor sigma54
and the transcriptional activator PspF. In addition,
PspA plays a negative regulatory role, and the
integral-membrane proteins PspB and PspC play a positive
one.
Length = 75
Score = 31.0 bits (71), Expect = 0.95
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 17/63 (26%)
Query: 328 IAIITILFLIFIA--FLIA-YRRKS------TENTRVL--------KNMQEQMDILELRV 370
+A+ I+F++F+A +LI YR K +E L + +QE++ LE +
Sbjct: 6 LAVPLIIFMLFVAPIWLILHYRSKWKVSQGLSEEDEQLLEELLETAEKLQERIQTLERIL 65
Query: 371 AAE 373
AE
Sbjct: 66 DAE 68
Score = 31.0 bits (71), Expect = 0.95
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 17/63 (26%)
Query: 1611 IAIITILFLIFIA--FLIA-YRRKS------TENTRVL--------KNMQEQMDILELRV 1653
+A+ I+F++F+A +LI YR K +E L + +QE++ LE +
Sbjct: 6 LAVPLIIFMLFVAPIWLILHYRSKWKVSQGLSEEDEQLLEELLETAEKLQERIQTLERIL 65
Query: 1654 AAE 1656
AE
Sbjct: 66 DAE 68
>gnl|CDD|200510 cd11249, Sema_3A, The Sema domain, a protein interacting module, of
semaphorin 3A (Sema3A). Sema3A has been reported to
inhibit the growth of certain experimental tumors and to
regulate endothelial cell migration and apoptosis in
vitro, as well as arteriogenesis in the muscle, skin
vessel permeability, and tumor angiogenesis in vivo. The
function of Sema3A is mediated through receptors
neuropilin-1 (NP1) and plexins, although little is known
about the requirement of specific plexins in its
receptor complex. It is known however that Plexin-A4 is
the receptor for Sema3A in the Toll-like receptor- and
sepsis-induced cytokine storm during immune response.
Sema3A is a member of the Class 3 semaphorin family of
secreted proteins. Semaphorins are regulatory molecules
in the development of the nervous system and in axonal
guidance. They also play important roles in other
biological processes, such as angiogenesis, immune
regulation, respiration systems and cancer. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a receptor-recognition and
-binding module.
Length = 493
Score = 34.2 bits (78), Expect = 1.1
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 7/75 (9%)
Query: 690 GDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENMTVNAD------LHLDSKAMHLY 743
G Y V+FIGTD G + KVV + +V ++E MTV + + L +K LY
Sbjct: 419 GQYDVMFIGTDMGTVLKVVSIPKETWHDLEEVLLEE-MTVFREPTAISAMELSTKQQQLY 477
Query: 744 VMTERRVSKVKVQEC 758
+ + VS++ + C
Sbjct: 478 IGSAIGVSQLPLHRC 492
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 33.1 bits (76), Expect = 2.2
Identities = 11/55 (20%), Positives = 24/55 (43%)
Query: 1613 IITILFLIFIAFLIAYRRKSTENTRVLKNMQEQMDILELRVAAECKEAFAELQTE 1667
+I +L + + L +R + E R+L+ Q++ + E KE + +
Sbjct: 13 LIGLLLGVLVVLLKKRQRLAKEAERILQEAQKEAEEKLEAALLEAKELLLRERNQ 67
>gnl|CDD|235407 PRK05322, PRK05322, galactokinase; Provisional.
Length = 387
Score = 32.9 bits (76), Expect = 2.2
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 22/82 (26%)
Query: 1655 AECKEAFAELQTE--ITDLTGDLTSGGIPFLDYRTYAMMILFPNSE------HHAVLQFE 1706
AEC++A ELQ + I L G+LT ++ Y+ +I E HAV + +
Sbjct: 229 AECEKALEELQKKLDIKSL-GELTE-----EEFDEYSYLI---KDETLLKRARHAVTENQ 279
Query: 1707 RP----ELLHKEKGLRLFGQLI 1724
R + L K L FG+L+
Sbjct: 280 RTLKAVKAL-KAGDLEKFGRLM 300
>gnl|CDD|227270 COG4934, COG4934, Predicted protease [Posttranslational modification,
protein turnover, chaperones].
Length = 1174
Score = 32.8 bits (75), Expect = 3.0
Identities = 26/165 (15%), Positives = 46/165 (27%), Gaps = 17/165 (10%)
Query: 395 VRSLQNISDIVQNVREAVVANN---GNASTFAFIAPGPPKPPSTHVMYVG--VTFTGNSP 449
+ S +A NA+ ++ P S+ + + P
Sbjct: 868 SAIIYPNSLSYNIYVIGSIAIIPLPYNATLLEWVGPAIIPLTSSGSNFTFSFGYYVIQFP 927
Query: 450 YRSEVPSIASRSLDPERMFQIADSAVTTGTRMFVNNLARERYIINYVYGFSSEG-FSYFL 508
+ + LDP +GT + + + G SS+G F+
Sbjct: 928 PGIYTINTSIPGLDPYSSL----INSKSGTVSNLQIYFLSSVPTSGLTGKSSDGGIKNFV 983
Query: 509 TTQLKSNIGTSFYISKLVRICHDDSNYYSYTEIPITCNSNSGKQY 553
L + G S + NYY + S S + Y
Sbjct: 984 IDVLVNTNGISAINNG-------TGNYYVIASVSNGTISFSSQIY 1021
>gnl|CDD|217407 pfam03176, MMPL, MMPL family. Members of this family are putative
integral membrane proteins from bacteria. Several of the
members are mycobacterial proteins. Many of the proteins
contain two copies of this aligned region. The function
of these proteins is not known, although it has been
suggested that they may be involved in lipid transport.
Length = 332
Score = 32.3 bits (74), Expect = 3.6
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 312 PAALNSPLTKTAMYG-GIAIITILFLIFIAFLIAYR 346
PAA + L G+ L +IFI LI YR
Sbjct: 129 PAATVADLRDAGDRDLGLIEAVTLVVIFIILLIVYR 164
Score = 32.3 bits (74), Expect = 3.6
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 1595 PAALNSPLTKTAMYG-GIAIITILFLIFIAFLIAYR 1629
PAA + L G+ L +IFI LI YR
Sbjct: 129 PAATVADLRDAGDRDLGLIEAVTLVVIFIILLIVYR 164
>gnl|CDD|184686 PRK14454, PRK14454, ribosomal RNA large subunit methyltransferase
N; Provisional.
Length = 342
Score = 32.3 bits (74), Expect = 3.7
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 12/61 (19%)
Query: 802 CQF---NIEGRVTSVNA-QLLGDVIYCDPMEFTYTSRLSNINASFAVIWGGSKPLDNPDN 857
C+F I G V ++ A ++L ++ + R+SNI V+ G +PLDN +N
Sbjct: 115 CKFCASTIGGMVRNLTAGEMLDQIL---AAQNDIGERISNI-----VLMGSGEPLDNYEN 166
Query: 858 V 858
V
Sbjct: 167 V 167
>gnl|CDD|227300 COG4965, TadB, Flp pilus assembly protein TadB [Intracellular
trafficking and secretion].
Length = 309
Score = 31.9 bits (73), Expect = 3.8
Identities = 13/50 (26%), Positives = 23/50 (46%)
Query: 323 AMYGGIAIITILFLIFIAFLIAYRRKSTENTRVLKNMQEQMDILELRVAA 372
A G ++ ++ LI A L +S R+ + Q+ + L+L V A
Sbjct: 99 AWLGLSLLVALVALIGAALLPRLVLRSRRARRLKRFGQQLPEALDLIVRA 148
Score = 31.9 bits (73), Expect = 3.8
Identities = 13/50 (26%), Positives = 23/50 (46%)
Query: 1606 AMYGGIAIITILFLIFIAFLIAYRRKSTENTRVLKNMQEQMDILELRVAA 1655
A G ++ ++ LI A L +S R+ + Q+ + L+L V A
Sbjct: 99 AWLGLSLLVALVALIGAALLPRLVLRSRRARRLKRFGQQLPEALDLIVRA 148
>gnl|CDD|213330 cd05128, RasGAP_GAP1_like, Ras-GTPase Activating Domain of GAP1 and
similar proteins. The GAP1 family of Ras
GTPase-activating proteins includes GAP1(m) (or RASA2),
GAP1_IP4BP (or RASA3), Ca2+ -promoted Ras inactivator
(CAPRI, or RASAL4), and Ras GTPase activating-like
proteins (RASAL) or RASAL1. The members are characterized
by a conserved domain structure comprising N-terminal
tandem C2 domains, a highly conserved central RasGAP
domain, and a C-terminal pleckstrin homology domain that
is associated with a Bruton's tyrosine kinase motif.
While this domain structure is conserved, a small change
in the function of each individual domain and the
interaction between domains has a marked effect on the
regulation of each protein.
Length = 269
Score = 31.5 bits (72), Expect = 4.4
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 2007 KGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGITDPEVVHTWKSNSLP 2066
L+ +V+ +F+ I S+A R P + +F L + A + +V +T S +
Sbjct: 131 LANLRGYVERVFKAITSSARR---CPTLMCEIFSDLRESAAQRFPDNEDVPYTAVSGFIF 187
Query: 2067 LRFWVNLIKNP 2077
LRF+ I NP
Sbjct: 188 LRFFAPAILNP 198
>gnl|CDD|200507 cd11246, Sema_plexin_C1, The Sema domain, a protein interacting
module, of Plexin C1. Plexins serve as semaphorin
receptors. Plexin C1 has been identified as the receptor
of semaphorin 7A, which plays regulation roles in both
the immune and nervous systems. Unlike other semaphorins
which act as repulsive guidance cues, Sema7A enhances
central and peripheral axon growth and is required for
proper axon tract formation during embryonic
development. Plexin C1 is a potential tumor suppressor
for melanoma progression. The expression of Plexin C1 is
diminished or absent in human melanoma cell lines.
Cofilin, an actin-binding protein involved in cell
migration, is a downstream target of Sema7A-Plexin C1
signaling. Cofilin is not phosphorylated when Plexin C1
expression is silenced. Thus, melanoma invasion and
metastasis may be promoted through the loss of Plexin C1
inhibitory signaling on cofilin activation. The Sema
domain is located at the N-terminus and contains four
disulfide bonds formed by eight conserved cysteine
residues. It serves as a ligand-recognition and -binding
module.
Length = 401
Score = 31.8 bits (72), Expect = 4.9
Identities = 34/173 (19%), Positives = 49/173 (28%), Gaps = 53/173 (30%)
Query: 558 AGFVGKPGSDLAGDLGITAQDDVLFAVFAESEAPDGEGSNRPKNSSALCIYPLASIRRKF 617
G L + DV VF+ E R ++ALC++ + I+ +
Sbjct: 240 CLHGHPRGRRLLLSSSLVRALDVGAGVFSAGEGQ----ERRAPCTTALCLFRMEEIQARA 295
Query: 618 MQNIKTCFSGQGNRGLDFISPAHPCVQTKLQTIGEDFCGLDVNTPLGGENPIEAVAVLNF 677
P P L T L
Sbjct: 296 NGESGDFPERVQ-------VPIAPSN--NLTT-------------------------LIH 321
Query: 678 SVRCTAVAATSTGDYTVVFIGTDTGHLKKVVVETSSIAIEYGDVKVDENMTVN 730
S +V T + TV+F+GT G L KV+ + ENMT N
Sbjct: 322 S-DLVSVYGTVVLNRTVLFLGTGDGQLLKVI--------------LGENMTSN 359
>gnl|CDD|224951 COG2040, MHT1, Homocysteine/selenocysteine methylase
(S-methylmethionine-dependent) [Amino acid transport and
metabolism].
Length = 300
Score = 31.6 bits (72), Expect = 5.3
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 2190 LEEDEFSQKQRLAYKLEQKSNAGMGKQKYANNGS-GSYHSNAYSPSEYNGNYGA 2242
+ EDE Q R + +L + + G++ GS G Y A EY G+YGA
Sbjct: 76 VSEDEAKQLIRRSVELARAARDAYGEENQNIAGSLGPY--GAALADEYRGDYGA 127
>gnl|CDD|173616 PTZ00426, PTZ00426, cAMP-dependent protein kinase catalytic subunit;
Provisional.
Length = 340
Score = 31.5 bits (71), Expect = 5.5
Identities = 46/184 (25%), Positives = 74/184 (40%), Gaps = 26/184 (14%)
Query: 1972 KEWHLVKHHDSDNQKEGERSNKMVSEIY-LTRLLATKGTLQKFVDDLFETIFSTAHRGSA 2030
K L K DSD+ KE +R NKM E + R L T G+ + I +T
Sbjct: 5 KNLQLHKKKDSDSTKEPKRKNKMKYEDFNFIRTLGT-GSFGR-------VILATYKNEDF 56
Query: 2031 LPLAIKYMFDFLDDQALNHGITDPEVVHTWKSNSLPLRFWVNLIKNPNFVFDIHKSNIVD 2090
P+AIK + I +V H + + +N I +P F +++ S +
Sbjct: 57 PPVAIKRF-------EKSKIIKQKQVDHVFSERKI-----LNYINHP-FCVNLYGSFKDE 103
Query: 2091 SCLSVVAQTFMDSCSTSDHRLGKDSPSS-KLLYAKDIPAYKEWVERY---YSDIKSMQAI 2146
S L +V + + + R K P+ YA I E+++ Y D+K +
Sbjct: 104 SYLYLVLEFVIGGEFFTFLRRNKRFPNDVGCFYAAQIVLIFEYLQSLNIVYRDLKPENLL 163
Query: 2147 SDQD 2150
D+D
Sbjct: 164 LDKD 167
>gnl|CDD|200513 cd11252, Sema_3D, The Sema domain, a protein interacting module, of
semaphorin 3D (Sema3D). Sema3D is a secreted semaphorin
expressed during the development of the nervous system.
In zebrafish, Sema3D is expressed in the ventral tectum.
It guides retinal axons along the dorsoventral axis of
the tectum and guides the laterality of retinal ganglion
cell (RGC) projections. Both Sema3D knockdown or its
ubiquitous overexpression induced aberrant ipsilateral
projections. Proper balance of Sema3D is needed at the
midline for the progression of RGC axons from the chiasm
midline into the contralateral optic tract. Sema3D is a
member of the class 3 semaphorin family of proteins.
Semaphorins are regulatory molecules in the development
of the nervous system and in axonal guidance. They also
play important roles in other biological processes, such
as angiogenesis, immune regulation, respiration systems
and cancer. The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 474
Score = 31.4 bits (71), Expect = 7.0
Identities = 21/92 (22%), Positives = 43/92 (46%), Gaps = 8/92 (8%)
Query: 675 LNFSVRCTAVA----ATSTGDYTVVFIGTDTGHLKKVVVET----SSIAIEYGDVKVDEN 726
+N R T + A G Y V+F+GTD G + KVV T + + ++++ ++
Sbjct: 383 INVDYRLTQIVVDHVAAEDGQYDVMFLGTDIGTVLKVVSITKEKWTMEEVVLEELQIFKH 442
Query: 727 MTVNADLHLDSKAMHLYVMTERRVSKVKVQEC 758
+ ++ L K LY+ + + ++ + C
Sbjct: 443 PSPILNMELSLKQQQLYIGSRDGLVQLSLHRC 474
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 31.4 bits (71), Expect = 7.3
Identities = 37/192 (19%), Positives = 70/192 (36%), Gaps = 29/192 (15%)
Query: 2220 NNGSGSYHSNAYSPSEY--NGNYGAGNHSNAYPTHSSSSLYGEEGDDEDINIHNVSTLSK 2277
NNGS + NA S E G+ S + SSS I ++ + +
Sbjct: 166 NNGSHAGAPNARSRKEIPSLGSQSMQLPSPHFRQKFSSSDTSNGFSYPSIRKNSRHSSNS 225
Query: 2278 SRKFTYNDVSPQAN--SNHYAQANLLNNYAPANTNSYTTSNHSLFQMYYKYFLITGVSRV 2335
F ++ + S + + +N P+++NS S S Y L SRV
Sbjct: 226 MPSFPHSSTAVLLKRHSGSSGASLISSNITPSSSNSEAMSTSSKRPYIYPALL----SRV 281
Query: 2336 GPSFRSGPAFCPTINGTNTGSREILVASNS---KKAVNVKVHIVGQFIAQTLD------L 2386
F+ + ++ L+ ++ +AV+V + I+ T D
Sbjct: 282 AVEFKM------RLQ-LGDHKKDGLLYRDAFTGSEAVDVLMLIIR-----TSDRNLALLN 329
Query: 2387 CRDLNEEQHYYE 2398
R L+ ++ +++
Sbjct: 330 GRSLDAQKLFHD 341
>gnl|CDD|213336 cd05134, RasGAP_RASA3, Ras-GTPase Activating Domain of RASA3. RASA3
(or GAP1_IP4BP) is a member of the GAP1 family and has
been shown to specifically bind 1,3,4,5-tetrakisphosphate
(IP4). Thus, RASA3 may function as an IP4 receptor. The
members of GAP1 family are characterized by a conserved
domain structure comprising N-terminal tandem C2 domains,
a highly conserved central RasGAP domain, and a
C-terminal pleckstrin-homology domain that is associated
with a Bruton's tyrosine kinase motif. Purified RASA3
stimulates GAP activity on Ras with about a five-fold
lower potency than p120RasGAP, but shows no
GAP-stimulating activity at all against Rac or Rab3A.
Length = 269
Score = 30.8 bits (69), Expect = 8.3
Identities = 21/73 (28%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 2007 KGTLQKFVDDLFETIFSTAHRGSALPLAIKYMFDFLDDQALNHGITDPEVVHTWKSNSLP 2066
+ L+++VD +F I + G + P + +F L + A DP+V +T S+ +
Sbjct: 131 RENLRQYVDRIFRVITKS---GVSCPTVMCDIFFSLRESAAKRFQVDPDVRYTAVSSFIF 187
Query: 2067 LRFWVNLIKNPNF 2079
LRF+ I +PN
Sbjct: 188 LRFFAPAILSPNL 200
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
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0701 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 119,024,218
Number of extensions: 11628803
Number of successful extensions: 11149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 11008
Number of HSP's successfully gapped: 111
Length of query: 2400
Length of database: 10,937,602
Length adjustment: 113
Effective length of query: 2287
Effective length of database: 5,925,600
Effective search space: 13551847200
Effective search space used: 13551847200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 67 (29.6 bits)