RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11674
(161 letters)
>gnl|CDD|241325 cd13171, RanBD1_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 1. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
insects and nematodes. The first RanBD is present in
this hierarchy.
Length = 112
Score = 140 bits (355), Expect = 5e-44
Identities = 59/84 (70%), Positives = 69/84 (82%)
Query: 77 ETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDM 136
E VLF RAKL+R+VDKEWKERG+G LK+LKN TGKVRLLMRR+ VHK+CANHF+ +DM
Sbjct: 1 EEVLFCARAKLFRYVDKEWKERGIGNLKILKNPATGKVRLLMRREQVHKVCANHFITKDM 60
Query: 137 ELKPMPNTKQAYIWFAQDYADEVV 160
EL PM +AYIW A D+ADEVV
Sbjct: 61 ELTPMDKEDKAYIWAANDFADEVV 84
>gnl|CDD|241330 cd13176, RanBD1_RanBD3_RanBP2_mammal-like, Ran-binding protein 2,
Ran binding domain repeats 1 and 3. RanBP2 (also called
E3 SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
human, chicken, frog, tunicates, sea urchins, ticks, sea
anemones, and sponges. RanBD repeats 1 and 3 are present
in this hierarchy.
Length = 116
Score = 131 bits (332), Expect = 2e-40
Identities = 51/89 (57%), Positives = 70/89 (78%), Gaps = 2/89 (2%)
Query: 72 TGEENETVLFEQRAKLYRF-VD-KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 129
TGEE+E LF RAKLYRF D K+WKERG+G +K+L+N ++GKVR+LMRRD V K+CAN
Sbjct: 1 TGEEDEEELFSHRAKLYRFDKDSKQWKERGIGDIKILQNPESGKVRILMRRDQVLKLCAN 60
Query: 130 HFLHQDMELKPMPNTKQAYIWFAQDYADE 158
H++ DM+LKP + ++++W A D+ADE
Sbjct: 61 HYITPDMKLKPNAGSDRSWVWTALDFADE 89
>gnl|CDD|241232 cd00835, RanBD_family, Ran-binding domain. The RanBD is present in
RanBD1, RanBD2, RanBD3, Nuc2, and Nuc50. Most of these
proteins have a single RanBD, with the exception of
RanBD2 which has 4 RanBDs. Ran is a Ras-like nuclear
small GTPase, which regulates receptor-mediated
transport between the nucleus and the cytoplasm. RanGTP
hydrolysis is stimulated by RanGAP together with the
Ran-binding domain containing acessory proteins RanBP1
and RanBP2. These accessory proteins stabilize the
active GTP-bound form of Ran. The Ran-binding domain is
found in multiple copies in Nuclear pore complex
proteins. RabBD shares structural similarity to the PH
domain, but lacks detectable sequence similarity. The
RanBD proteins of the nuclear pore complex (NPC):
nucleoporin 1 (NUP1), NUP2, NUP61, and Nuclear Pore
complex Protein 9 (npp-9) are present in the parent, but
specific models were not made due to lineage. To date
there been no reports of inositol phosphate or
phosphoinositide binding by Ran-binding proteins.
Length = 111
Score = 126 bits (318), Expect = 2e-38
Identities = 47/84 (55%), Positives = 61/84 (72%), Gaps = 2/84 (2%)
Query: 77 ETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQ 134
E VLF +RAKLYRF KEWKERGVG LK+LK+K+TGK R+LMRR+ V K+C NH +
Sbjct: 1 EEVLFSERAKLYRFDKDTKEWKERGVGDLKILKHKETGKYRILMRREQVGKVCLNHLITP 60
Query: 135 DMELKPMPNTKQAYIWFAQDYADE 158
+M+LKP + +A +W A D +D
Sbjct: 61 EMKLKPTAGSDKAVVWTAVDDSDG 84
>gnl|CDD|241333 cd13179, RanBD_RanBP1, Ran-binding domain. RanBP1 interacts
specifically with GTP-charged Ran. RanBP1 does not
activate GTPase activity of Ran, but does markedly
increase GTP hydrolysis by the RanGTPase-activating
protein (RanGAP1). In both mammalian cells and in yeast,
RanBP1 acts as a negative regulator of Regulator of
chromosome condensation 1 (RCC1) by inhibiting
RCC1-stimulated guanine nucleotide release from Ran. In
addition to Ran, RanBP1 has been shown to interact with
Exportin-1 and Importin subunit beta-1 which docks the
NPC at the cytoplasmic side of the nuclear pore complex.
RabBP1 contains a single RanBD. The RanBD is present in
RanBD1, RanBD2, RanBD3, Nuc2, and Nuc50. Most of these
proteins have a single RanBD, with the exception of
RanBD2 which has 4 RanBDs. Ran is a Ras-like nuclear
small GTPase, which regulates receptor-mediated
transport between the nucleus and the cytoplasm. RanGTP
hydrolysis is stimulated by RanGAP together with the
Ran-binding domain containing acessory proteins RanBP1
and RanBP2. These accessory proteins stabilize the
active GTP-bound form of Ran. The Ran-binding domain is
found in multiple copies in Nuclear pore complex
proteins. RabBD shares structural similarity to the PH
domain, but lacks detectable sequence similarity.
Length = 126
Score = 123 bits (312), Expect = 3e-37
Identities = 50/96 (52%), Positives = 67/96 (69%), Gaps = 5/96 (5%)
Query: 69 KVTTGEENETVLFEQRAKLYRFVD----KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVH 124
+V T EE+E LF+ RAKLYRF EWKERG G +K+LK+K+T K+RLLMRRD
Sbjct: 3 EVKTNEEDEEELFKMRAKLYRFDTENDPPEWKERGTGDVKILKHKETNKIRLLMRRDKTL 62
Query: 125 KICANHFLHQDMELKPMPNTKQAYIWFA-QDYADEV 159
KICANH++ +M+LKP + +A++W D+ADE
Sbjct: 63 KICANHYITPEMKLKPNCGSDRAWVWNTPADFADEE 98
>gnl|CDD|197549 smart00160, RanBD, Ran-binding domain. Domain of apporximately 150
residues that stabilises the GTP-bound form of Ran (the
Ras-like nuclear small GTPase).
Length = 130
Score = 120 bits (304), Expect = 6e-36
Identities = 53/92 (57%), Positives = 69/92 (75%), Gaps = 3/92 (3%)
Query: 70 VTTGEENETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKD-TGKVRLLMRRDIVHKI 126
V TGEE+E V+F RAKLYRF + KEWKERGVG LK+LK+KD GKVR++MRRD V K+
Sbjct: 12 VKTGEEDEEVIFSARAKLYRFANDKKEWKERGVGDLKILKSKDNGGKVRIVMRRDGVLKV 71
Query: 127 CANHFLHQDMELKPMPNTKQAYIWFAQDYADE 158
CANH + + M LKP+ + +A W +D+AD+
Sbjct: 72 CANHPIFKSMTLKPLAGSNRALKWTPEDFADD 103
>gnl|CDD|109686 pfam00638, Ran_BP1, RanBP1 domain.
Length = 122
Score = 117 bits (296), Expect = 7e-35
Identities = 53/91 (58%), Positives = 70/91 (76%), Gaps = 2/91 (2%)
Query: 70 VTTGEENETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKIC 127
V +GEE+E VLF RAKL+RF K+WKERGVG +K+LKNKD GKVR+LMRRD V K+C
Sbjct: 2 VKSGEEDEEVLFSVRAKLFRFDAEVKQWKERGVGDIKILKNKDDGKVRILMRRDQVLKVC 61
Query: 128 ANHFLHQDMELKPMPNTKQAYIWFAQDYADE 158
ANH++ DM LKP+ + ++++W A D+AD
Sbjct: 62 ANHYITPDMTLKPLAGSDRSWVWTAADFADG 92
>gnl|CDD|241326 cd13172, RanBD2_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 2. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
insects and nematodes. The second RanBD is present in
this hierarchy.
Length = 113
Score = 110 bits (276), Expect = 6e-32
Identities = 49/88 (55%), Positives = 60/88 (68%), Gaps = 3/88 (3%)
Query: 77 ETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNK-DTGKVRLLMRRDIVHKICANHFLH 133
E VLFE RAKL RF KEWKERG+G +KLL+NK D KVRLLMRR+ V K+C N L
Sbjct: 1 EEVLFEHRAKLLRFDKATKEWKERGLGNIKLLRNKEDNNKVRLLMRREQVLKVCCNQRLT 60
Query: 134 QDMELKPMPNTKQAYIWFAQDYADEVVS 161
+DME K + N +A W AQDY++ +
Sbjct: 61 KDMEFKYLTNNPKALTWCAQDYSEGELK 88
>gnl|CDD|241327 cd13173, RanBD3_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 3. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
insects and nematodes. The third RanBD is present in
this hierarchy.
Length = 110
Score = 101 bits (253), Expect = 1e-28
Identities = 43/84 (51%), Positives = 64/84 (76%), Gaps = 2/84 (2%)
Query: 77 ETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDM 136
E VL+ RAKL+RFVDKEWKERG+G +K+L++K+TGK+RLLMRRD V KIC NH L +++
Sbjct: 1 EEVLYSHRAKLFRFVDKEWKERGLGDVKILRHKETGKLRLLMRRDQVLKICLNHALTEEL 60
Query: 137 ELKPMPNTKQAYIWFAQDYADEVV 160
E + +++++W A D+++
Sbjct: 61 EFR--KKDEKSWMWAAHDFSEGES 82
>gnl|CDD|241331 cd13177, RanBD2_RanBP2_mammal-like, Ran-binding protein 2, Ran
binding domain repeats 2. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
human, chicken, frog, tunicates, sea urchins, ticks, sea
anemones, and sponges. RanBD repeats 2 is present in
this hierarchy.
Length = 117
Score = 101 bits (252), Expect = 2e-28
Identities = 47/88 (53%), Positives = 66/88 (75%), Gaps = 2/88 (2%)
Query: 72 TGEENETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 129
TGEE+E VL+ QR KL+RF +WKERGVG LK+LKN+ GK+R+LMRR+ V K+CAN
Sbjct: 1 TGEEDEKVLYSQRVKLFRFDAEVSQWKERGVGNLKILKNEVNGKLRMLMRREQVLKVCAN 60
Query: 130 HFLHQDMELKPMPNTKQAYIWFAQDYAD 157
H++ M LKP+ + +A++W A D++D
Sbjct: 61 HWITTTMNLKPLSGSDKAWMWMANDFSD 88
>gnl|CDD|241332 cd13178, RanBD4_RanBP2_mammal-like, Ran-binding protein 2, Ran
binding domain repeats 2 and 4. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
human, chicken, frog, tunicates, sea urchins, ticks, sea
anemones, and sponges. RanBD repeats 2 and 4 are present
in this hierarchy.
Length = 117
Score = 96.5 bits (240), Expect = 2e-26
Identities = 44/89 (49%), Positives = 64/89 (71%), Gaps = 4/89 (4%)
Query: 72 TGEENETVLFEQRAKLYRFVDK---EWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICA 128
+GEE+E +LF++RAKLYR+ D+ +WKERGVG+LK+L + R+LMRRD V K+CA
Sbjct: 1 SGEEDEEILFKERAKLYRW-DRDVQQWKERGVGELKILFHTQKKYYRILMRRDQVLKVCA 59
Query: 129 NHFLHQDMELKPMPNTKQAYIWFAQDYAD 157
NH + +++ L P+ + A +W A DYAD
Sbjct: 60 NHVISKEITLTPLNTSNNALVWTATDYAD 88
>gnl|CDD|241328 cd13174, RanBD4_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 4. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
insects and nematodes. The fourth RanBD is present in
this hierarchy.
Length = 113
Score = 92.9 bits (231), Expect = 4e-25
Identities = 39/83 (46%), Positives = 57/83 (68%), Gaps = 2/83 (2%)
Query: 77 ETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQ 134
ET LF +RAKLYRF KEWKERGVG++K+L + + RLLMRR+ VHK+ N +
Sbjct: 1 ETKLFGERAKLYRFDADTKEWKERGVGEMKILYHPELNTYRLLMRREQVHKVVLNMLITS 60
Query: 135 DMELKPMPNTKQAYIWFAQDYAD 157
D++L+PM + +++ W +YA+
Sbjct: 61 DLQLRPMNTSDKSFTWGGMNYAE 83
>gnl|CDD|227499 COG5171, YRB1, Ran GTPase-activating protein (Ran-binding protein)
[Intracellular trafficking and secretion].
Length = 211
Score = 84.3 bits (208), Expect = 9e-21
Identities = 41/83 (49%), Positives = 61/83 (73%), Gaps = 2/83 (2%)
Query: 70 VTTGEENETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKIC 127
+ T EE+ETVLF+ RAKL+RF + KEWKERG G + +LK+K T K R+ MRRD K+C
Sbjct: 82 LKTNEEDETVLFKARAKLFRFDEEAKEWKERGTGDMIILKHKKTNKARITMRRDKTLKLC 141
Query: 128 ANHFLHQDMELKPMPNTKQAYIW 150
ANHF++ + +L+P + ++++W
Sbjct: 142 ANHFINPEFKLQPNVGSDRSWVW 164
>gnl|CDD|241335 cd13181, RanBD_NUP2, Nucleoporin 2 Ran-binding domain. Yeast
protein Nup2 transiently associates with Nuclear pore
complexes (NPCs) and when artificially tethered to DNA,
can prevent the spread of transcriptional activation or
repression between flanking genes, a function termed
boundary activity (BA). Nup2 and the Ran
guanylyl-nucleotide exchange factor, Prp20, interact at
specific chromatin regions and enable the NPC to play an
active role in chromatin organization. Nup60p, the nup
responsible for anchoring Nup2 and the Mlp proteins to
the NPC is required for Nup2-dependent BA. Nup2 contains
an N-terminal Nup50 family domain and a C-terminal
RanBD. Ran is a Ras-like nuclear small GTPase, which
regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. RabBD shares structural similarity to the
PH domain, but lacks detectable sequence similarity.
Length = 111
Score = 60.5 bits (147), Expect = 1e-12
Identities = 32/72 (44%), Positives = 48/72 (66%), Gaps = 4/72 (5%)
Query: 76 NETVLFEQRAKLYRF--VDKE--WKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHF 131
NE VL+ +RAKL F +KE + +GVG+LKLLKNKDTGK R+L+R + ++ N
Sbjct: 1 NEEVLYTKRAKLMLFDPSNKESPYTSKGVGELKLLKNKDTGKSRILVRAEGSLRVLLNTL 60
Query: 132 LHQDMELKPMPN 143
+ +D++ + M N
Sbjct: 61 VLKDVKYEKMGN 72
Score = 48.2 bits (115), Expect = 5e-08
Identities = 25/43 (58%), Positives = 31/43 (72%), Gaps = 4/43 (9%)
Query: 32 NETVLFEQRAKLYRF--VDKE--WKERGVGQLKLLKNKDTGKV 70
NE VL+ +RAKL F +KE + +GVG+LKLLKNKDTGK
Sbjct: 1 NEEVLYTKRAKLMLFDPSNKESPYTSKGVGELKLLKNKDTGKS 43
>gnl|CDD|241324 cd13170, RanBD_NUP50, Nucleoporin 50 Ran-binding domain. NUP50
acts as a cofactor for the importin-alpha:importin-beta
heterodimer, which allows for transportation of many
nuclear-targeted proteins through nuclear pore
complexes. It is thought to function primarily at the
terminal stages of nuclear protein import to coordinate
import complex disassembly and importin recycling. NUP50
is composed of a N-terminal NUP50 domain which binds the
C-terminus of importin-beta, a central domain which
binds importin-beta, and a C-terminal RanBD which binds
importin-beta through Ran-GTP. NUP50:importin-alpha then
binds cargo and can stimulate nuclear import. The
N-terminal domain of NUP50 is also able to displace
nuclear localization signals from importin-alpha. NUP50
interacts with cyclin-dependent kinase inhibitor 1B
which binds to cyclin E-CDK2 or cyclin D-CDK4 complexes
and prevents its activation, thereby controling the cell
cycle progression at G1. Ran is a Ras-like nuclear small
GTPase, which regulates receptor-mediated transport
between the nucleus and the cytoplasm. RanGTP hydrolysis
is stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. RabBD shares structural similarity to the
PH domain, but lacks detectable sequence similarity.
Length = 109
Score = 60.0 bits (146), Expect = 2e-12
Identities = 28/67 (41%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 77 ETVLFEQRAKLYRFVD-KEWKERGVGQLKLLKNKDTGKVRLLMRRD-IVHKICANHFLHQ 134
E ++ R KL+ D EWK++GVG L L K KDT K RLL+R D + KI N L+
Sbjct: 1 EDAVYSVRCKLFVKKDDGEWKDKGVGTLYLKKVKDTSKARLLVRADTSLGKILLNILLYP 60
Query: 135 DMELKPM 141
M +
Sbjct: 61 GMPVTVT 67
Score = 47.7 bits (114), Expect = 8e-08
Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 33 ETVLFEQRAKLYRFVD-KEWKERGVGQLKLLKNKDTGKVT 71
E ++ R KL+ D EWK++GVG L L K KDT K
Sbjct: 1 EDAVYSVRCKLFVKKDDGEWKDKGVGTLYLKKVKDTSKAR 40
>gnl|CDD|241329 cd13175, RanBD5_RanBP2_insect-like, Ran-binding protein 2, Ran
binding domain repeat 5. RanBP2 (also called E3
SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
insects and nematodes. The fifth RanBD is present in
this hierarchy.
Length = 106
Score = 58.6 bits (142), Expect = 5e-12
Identities = 34/84 (40%), Positives = 49/84 (58%), Gaps = 8/84 (9%)
Query: 77 ETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQ 134
E V+F RAKLYR+ KEWKERGVG++K+L +K R++++ D +I +N +
Sbjct: 1 EEVVFSHRAKLYRYDAETKEWKERGVGEMKILHHKGA---RIVLKDDDTDEILSNTIIAM 57
Query: 135 DMELKPMPNTKQAYIWFAQDYADE 158
L+ K+ IW A DYA E
Sbjct: 58 QTSLR--VEGKEC-IWSAIDYALE 78
Score = 52.1 bits (125), Expect = 2e-09
Identities = 23/50 (46%), Positives = 33/50 (66%), Gaps = 2/50 (4%)
Query: 33 ETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVTTGEENETVL 80
E V+F RAKLYR+ KEWKERGVG++K+L +K V ++ + +L
Sbjct: 1 EEVVFSHRAKLYRYDAETKEWKERGVGEMKILHHKGARIVLKDDDTDEIL 50
>gnl|CDD|241323 cd13169, RanBD_NUP50_plant, Ran-binding protein 2, repeat 1.
RanBP2 (also called E3 SUMO-protein ligase RanBP2, 358
kDa nucleoporin, and nuclear pore complex (NPC) protein
Nup358) is a giant nucleoporin that localizes to the
cytosolic face of the NPC. RanBP2 contains a
leucine-rich region, 8 zinc-finger motifs, a cyclophilin
A homologous domain, and 4 RanBDs. Ran is a Ras-like
nuclear small GTPase, which regulates receptor-mediated
transport between the nucleus and the cytoplasm. RanGTP
hydrolysis is stimulated by RanGAP together with the
Ran-binding domain containing acessory proteins RanBP1
and RanBP2. These accessory proteins stabilize the
active GTP-bound form of Ran. All eukaryotic cells
contain RanBP1, but in vertebrates however, the main
RanBP seems to be RanBP2. There is no RanBP2 ortholog in
yeast. Transport complex disassembly is accomplished by
a small ubiquitin-related modifier-1 (SUMO-1)-modified
version of RanGAP that is bound to RanBP2. RanBP1 acts
as a second line of defense against exported
RanGTP#importin complexes which have escaped from
dissociation by RanBP2. RanBP2 also interacts with the
importin subunit beta-1. RabBD shares structural
similarity to the PH domain, but lacks detectable
sequence similarity. The first RanBD2 is present in this
hierarchy.
Length = 112
Score = 50.5 bits (121), Expect = 8e-09
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 77 ETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDM 136
E +F L+ F+ WKERG G+L++ + TGK RL+MR +++ N L DM
Sbjct: 1 EKAVFSGDGALFEFITGGWKERGRGELRVNLST-TGKARLVMRAKGNYRLLLNANLFPDM 59
Query: 137 ELKPM 141
+L M
Sbjct: 60 KLTKM 64
Score = 37.0 bits (86), Expect = 8e-04
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 33 ETVLFEQRAKLYRFVDKEWKERGVGQLKL 61
E +F L+ F+ WKERG G+L++
Sbjct: 1 EKAVFSGDGALFEFITGGWKERGRGELRV 29
>gnl|CDD|241334 cd13180, RanBD_RanBP3, Ran-binding protein 3 Ran-binding domain.
RanBP3, a Ran-interacting nuclear protein, unlike the
related proteins RanBP1 and RanBP2, which promote
disassembly of the export complex in the cytosol, acts
as a CRM1 cofactor, enhancing nuclear export signal
(NES) export by stabilizing the export complex in the
nucleus. CRM1/Exportin1 is responsible for exporting
many proteins and ribonucleoproteins from the nucleus to
the cytosol. RanBP3 also alters the cargo selectivity of
CRM1, promoting recognition of the NES of HIV-1 Rev and
of other cargos while deterring recognition of the
import adaptor protein Snurportin1. RanBP3 contains a
N-terminal nuclear localization signal (NLS), 2 FxFG
motifs, and a single RanBD. RabBD shares structural
similarity to the PH domain, but lacks detectable
sequence similarity.
Length = 113
Score = 33.4 bits (77), Expect = 0.016
Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 5/49 (10%)
Query: 76 NETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKDTGKV---RLLMR 119
E + + KL+ F + W ERG G L+L RL+MR
Sbjct: 1 GERNVLQINCKLFAFDKSKQSWVERGRGTLRLNDKASEDGPFQSRLVMR 49
Score = 30.3 bits (69), Expect = 0.16
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 32 NETVLFEQRAKLYRF--VDKEWKERGVGQLKL 61
E + + KL+ F + W ERG G L+L
Sbjct: 1 GERNVLQINCKLFAFDKSKQSWVERGRGTLRL 32
>gnl|CDD|241235 cd00900, PH-like, Pleckstrin homology-like domain. The PH-like
family includes the PH domain, both the Shc-like and
IRS-like PTB domains, the ran-binding domain, the EVH1
domain, a domain in neurobeachin and the third domain of
FERM. All of these domains have a PH fold, but lack
significant sequence similarity. They are generally
involved in targeting to protein to the appropriate
cellular location or interacting with a binding partner.
This domain family possesses multiple functions
including the ability to bind inositol phosphates and to
other proteins.
Length = 88
Score = 31.2 bits (71), Expect = 0.069
Identities = 12/82 (14%), Positives = 27/82 (32%), Gaps = 11/82 (13%)
Query: 81 FEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDM--EL 138
A K+RG G L + N RL++R ++ + +
Sbjct: 1 CSFSAVRVYCD---GKKRGRGTLFITSN------RLILRDKQDDRLKLKIPISDIVKVNP 51
Query: 139 KPMPNTKQAYIWFAQDYADEVV 160
++ +A + +D + +
Sbjct: 52 SRASDSDRALVLRLKDKRESLG 73
>gnl|CDD|224294 COG1376, ErfK, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 232
Score = 26.8 bits (59), Expect = 4.8
Identities = 14/85 (16%), Positives = 21/85 (24%), Gaps = 7/85 (8%)
Query: 17 IIPLPDEVP--VTTGEENETVLFEQRAKLY---RFVDKE--WKERGVGQLKLLKNKDTGK 69
+ PLP + E A V G +
Sbjct: 25 VAPLPGAAVGVAGPVAPGDDRKLEAYAAKVDTGPPVRAANPAVPFEPGPIAPKVIPQVVL 84
Query: 70 VTTGEENETVLFEQRAKLYRFVDKE 94
TGE T++ + +L VD
Sbjct: 85 YPTGEIPGTIVVDTGLRLLYLVDDS 109
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
0.317 0.136 0.405
Gapped
Lambda K H
0.267 0.0691 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,352,042
Number of extensions: 749963
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 655
Number of HSP's successfully gapped: 52
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
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 (21.6 bits)
S2: 55 (25.0 bits)