RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4433
(211 letters)
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 184 bits (468), Expect = 3e-59
Identities = 76/208 (36%), Positives = 123/208 (59%), Gaps = 6/208 (2%)
Query: 7 RKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTY---EKKNIKIVDLP 63
RKSSQ+ VL GL SGKTLLF RL+ +Y ++ TS+ ++ + ++ ++DLP
Sbjct: 3 RKSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLP 62
Query: 64 GEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCC 123
G + LR + D++KSSA+ +V+V+DS+ Q+ ++DVAE LY +L D + ++L+ C
Sbjct: 63 GHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIAC 122
Query: 124 NKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDTNDVAANQTFLGNPDKDFEFSDLYN 183
NKQD +AKS+ +++ L+KELN +R T+S + + LG K+FEFS L
Sbjct: 123 NKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPL 182
Query: 184 QVSFCDT---TGLDSASEYDVEQLQDWM 208
+V F + G D++ L+ W+
Sbjct: 183 KVEFLECSAKGGRGDTGSADIQDLEKWL 210
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 167 bits (424), Expect = 2e-52
Identities = 55/218 (25%), Positives = 97/218 (44%), Gaps = 16/218 (7%)
Query: 1 FLFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
+ K +KS Q ++++G SGKT L L + S + Y+ + +V
Sbjct: 3 HMGIK-QKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSA-ADYDGSGVTLV 60
Query: 61 DLPGEDRLRNKFFDQYKSS---AKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSR- 116
D PG +LR K D K+ KG+++++DS+ K L AE L IL+ +
Sbjct: 61 DFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENG 120
Query: 117 VNILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDT------NDVAANQTFLG 170
++IL+ CNK + A+ S +K L+ E+ V + L + D A N +
Sbjct: 121 IDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVL 180
Query: 171 NPDKDFEFSDLYNQVSFCDTTGLDSASEYDVEQLQDWM 208
F+F++L V + S ++ + Q ++W+
Sbjct: 181 QSTDGFKFANLEASVVAFEG----SINKRKISQWREWI 214
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 137 bits (348), Expect = 2e-41
Identities = 43/153 (28%), Positives = 71/153 (46%), Gaps = 5/153 (3%)
Query: 4 FKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLP 63
S Q ++++G SGKT L L + S E + Y+ + +VD P
Sbjct: 41 SGGGGSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQ-EPLSAADYDGSGVTLVDFP 99
Query: 64 GEDRLRNKFFDQYKSS---AKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSR-VNI 119
G +LR K D K+ KG+++++DS+ K L AE L IL+ + ++I
Sbjct: 100 GHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDI 159
Query: 120 LVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTK 152
L+ CNK + A+ S +K L+ E+ V +
Sbjct: 160 LIACNKSELFTARPPSKIKDALESEIQKVIERR 192
>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport
protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 187
Score = 68.4 bits (168), Expect = 1e-14
Identities = 30/141 (21%), Positives = 69/141 (48%), Gaps = 5/141 (3%)
Query: 2 LFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVD 61
++ F KV+++ GL +GKT + + ++ + ++ NV + D
Sbjct: 8 IWRLFNHQEHKVIIV-GLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWD 66
Query: 62 LPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILV 121
+ G++ LR+ ++ Y ++ + ++ V+DS T ++ + E LY +LA ++ + +L+
Sbjct: 67 IGGQESLRS-SWNTYYTNTEFVIVVVDS-TDRERISVTREELYKMLAHEDLR--KAGLLI 122
Query: 122 CCNKQDQTLAKSSSVVKTLLQ 142
NKQD + + + L+
Sbjct: 123 FANKQDVKECMTVAEISQFLK 143
>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GTP; 2.00A {Homo sapiens}
Length = 190
Score = 65.8 bits (161), Expect = 1e-13
Identities = 37/142 (26%), Positives = 60/142 (42%), Gaps = 5/142 (3%)
Query: 3 FFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTS--LKENVGNFTYEKKNIKIV 60
V+ L GL SGKT + +L S + ++ F + +
Sbjct: 14 LVPRGSKEVHVLCL-GLDNSGKTTIINKLKPSNAQSQNILPTIGFSIEKFKSSSLSFTVF 72
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
D+ G+ R RN ++ Y + I++V+DSS + + E L +L P ++ R+ IL
Sbjct: 73 DMSGQGRYRN-LWEHYYKEGQAIIFVIDSSDRLR-MVVAKEELDTLLNHPDIKHRRIPIL 130
Query: 121 VCCNKQDQTLAKSSSVVKTLLQ 142
NK D A +S V LL
Sbjct: 131 FFANKMDLRDAVTSVKVSQLLC 152
>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without
magnesium, ARF family, RAS superfamily, G-domain,
signaling protein; HET: MES GDP; 1.70A {Mus musculus}
SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*
Length = 181
Score = 64.9 bits (159), Expect = 2e-13
Identities = 29/140 (20%), Positives = 63/140 (45%), Gaps = 5/140 (3%)
Query: 3 FFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDL 62
+++LL GL +GKT L +L + N+ + + + + D+
Sbjct: 9 LKSAPDQEVRILLL-GLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDI 67
Query: 63 PGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVC 122
G+ ++R ++ Y + ++YV+DS+ ++ + + L +L + ++ V +L+
Sbjct: 68 GGQRKIRP-YWRSYFENTDILIYVIDSADRKR-FEETGQELTELLEEEKLSC--VPVLIF 123
Query: 123 CNKQDQTLAKSSSVVKTLLQ 142
NKQD A +S + L
Sbjct: 124 ANKQDLLTAAPASEIAEGLN 143
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 64.2 bits (157), Expect = 3e-13
Identities = 28/140 (20%), Positives = 66/140 (47%), Gaps = 5/140 (3%)
Query: 3 FFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDL 62
KV+++ GL +GKT + + ++ + ++ NV + D+
Sbjct: 14 LVPRGSQEHKVIIV-GLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDI 72
Query: 63 PGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVC 122
G++ LR+ ++ Y ++ + ++ V+DS+ ++ + E LY +LA ++ + +L+
Sbjct: 73 GGQESLRS-SWNTYYTNTEFVIVVVDSTDRER-ISVTREELYKMLAHEDLR--KAGLLIF 128
Query: 123 CNKQDQTLAKSSSVVKTLLQ 142
NKQD + + + L+
Sbjct: 129 ANKQDVKECMTVAEISQFLK 148
>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF
family; HET: CME GDP; 1.80A {Mus musculus} SCOP:
c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*
Length = 186
Score = 62.6 bits (153), Expect = 1e-12
Identities = 32/142 (22%), Positives = 70/142 (49%), Gaps = 5/142 (3%)
Query: 2 LFFKFRKSSQKV-VLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
+ K ++ +++ +L+ GL +GKT + + +L N+ + + I
Sbjct: 8 ILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIW 67
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
D+ G+ LR+ ++ Y S G+++V+DS+ Q+ ++D L +L + ++ +L
Sbjct: 68 DVGGQKSLRS-YWRNYFESTDGLIWVVDSADRQR-MQDCQRELQSLLVEERLAG--ATLL 123
Query: 121 VCCNKQDQTLAKSSSVVKTLLQ 142
+ NKQD A S + ++ L+
Sbjct: 124 IFANKQDLPGALSCNAIQEALE 145
>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein
binding; HET: GDP; 3.17A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 183
Score = 62.3 bits (152), Expect = 2e-12
Identities = 37/142 (26%), Positives = 76/142 (53%), Gaps = 5/142 (3%)
Query: 2 LFFKFRKSSQKV-VLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
+F K S++++ +L+ GL +GKT + RL + + ++ NV +Y+ + +
Sbjct: 8 MFDKLWGSNKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVETLSYKNLKLNVW 67
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
DL G+ +R ++ Y + +++V+DS+ + + ++ L+++L + ++Q +L
Sbjct: 68 DLGGQTSIRP-YWRCYYADTAAVIFVVDSTDKDR-MSTASKELHLMLQEEELQD--AALL 123
Query: 121 VCCNKQDQTLAKSSSVVKTLLQ 142
V NKQDQ A S+S V L
Sbjct: 124 VFANKQDQPGALSASEVSKELN 145
>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural
genomics, structural G consortium, SGC, protein
transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z6x_A* 3aq4_A*
Length = 192
Score = 61.9 bits (151), Expect = 3e-12
Identities = 34/141 (24%), Positives = 70/141 (49%), Gaps = 4/141 (2%)
Query: 2 LFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVD 61
LF + Q +L+ GL +GKT + +L + + ++ NV Y+ + D
Sbjct: 20 LFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNICFTVWD 79
Query: 62 LPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILV 121
+ G+D++R + Y + +G+++V+DS ++ +++ A+ L +L + +++ +LV
Sbjct: 80 VGGQDKIRP-LWRHYFQNTQGLIFVVDS-NDRERVQESADELQKMLQEDELRD--AVLLV 135
Query: 122 CCNKQDQTLAKSSSVVKTLLQ 142
NKQD A S + L
Sbjct: 136 FANKQDMPNAMPVSELTDKLG 156
>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor,
protein transport-exchang complex; HET: GDP; 1.46A {Bos
taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A*
1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A*
1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A*
2a5f_A* 2j5x_A* 1e0s_A* ...
Length = 164
Score = 59.9 bits (146), Expect = 1e-11
Identities = 31/129 (24%), Positives = 68/129 (52%), Gaps = 4/129 (3%)
Query: 14 VLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFF 73
+L+ GL +GKT + +L + + ++ NV Y+ + + D+ G+D++R +
Sbjct: 3 ILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRP-LW 61
Query: 74 DQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKS 133
Y + +G+++V+DS ++ + + E L +LA+ +++ +LV NKQD A +
Sbjct: 62 RHYFQNTQGLIFVVDS-NDRERVNEAREELMRMLAEDELR--DAVLLVFANKQDLPNAMN 118
Query: 134 SSVVKTLLQ 142
++ + L
Sbjct: 119 AAEITDKLG 127
>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding,
membrane trafficking, structural genomics, structural
genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*
Length = 188
Score = 59.5 bits (145), Expect = 2e-11
Identities = 35/143 (24%), Positives = 65/143 (45%), Gaps = 8/143 (5%)
Query: 2 LFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTS--LKENVGNFTYEKKNIKI 59
L + K ++ L+ GL SGKT + ++ E + N+ T IK+
Sbjct: 14 LVPRGSKEEMELTLV-GLQYSGKTTFVNVIASGQFNED-MIPTVGFNMRKITKGNVTIKL 71
Query: 60 VDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNI 119
D+ G+ R R+ +++Y IVY++D++ +K + L+ +L PQ+Q + +
Sbjct: 72 WDIGGQPRFRS-MWERYCRGVSAIVYMVDAADQEK-IEASKNELHNLLDKPQLQG--IPV 127
Query: 120 LVCCNKQDQTLAKSSSVVKTLLQ 142
LV NK+D A + +
Sbjct: 128 LVLGNKRDLPGALDEKELIEKMN 150
>1upt_A ARL1, ADP-ribosylation factor-like protein 1;
hydrolase/protein-binding, complex (GTPase/golgin),
golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP;
1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*
Length = 171
Score = 58.7 bits (143), Expect = 3e-11
Identities = 33/137 (24%), Positives = 64/137 (46%), Gaps = 5/137 (3%)
Query: 6 FRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGE 65
++++L GL +GKT + RL + + ++ NV TY+ ++ DL G
Sbjct: 3 HMTREMRILIL-GLDGAGKTTILYRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGL 61
Query: 66 DRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNK 125
+R ++ Y S+ ++YV+DS + + L +L + +++ ++V NK
Sbjct: 62 TSIRP-YWRCYYSNTDAVIYVVDSCDRDR-IGISKSELVAMLEEEELRK--AILVVFANK 117
Query: 126 QDQTLAKSSSVVKTLLQ 142
QD A +SS + L
Sbjct: 118 QDMEQAMTSSEMANSLG 134
>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein
transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP:
c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*
Length = 198
Score = 58.8 bits (143), Expect = 4e-11
Identities = 35/141 (24%), Positives = 60/141 (42%), Gaps = 5/141 (3%)
Query: 1 FLFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
F K + K+V L GL +GKT L L + + +L T
Sbjct: 16 LQFLGLYKKTGKLVFL-GLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEELTIAGMTFTTF 74
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
DL G + R + Y + GIV+++D + ++ L + E L ++ D + + V IL
Sbjct: 75 DLGGHIQARR-VWKNYLPAINGIVFLVDCADHER-LLESKEELDSLMTDETIAN--VPIL 130
Query: 121 VCCNKQDQTLAKSSSVVKTLL 141
+ NK D+ A S ++ +
Sbjct: 131 ILGNKIDRPEAISEERLREMF 151
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 58.8 bits (143), Expect = 4e-11
Identities = 33/142 (23%), Positives = 65/142 (45%), Gaps = 5/142 (3%)
Query: 1 FLFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
L +V++L GL +GKT + RL + ++ N+ Y+ + ++
Sbjct: 13 TLGLLPADRKIRVLML-GLDNAGKTSILYRLHLGDVVTTVPTVGVNLETLQYKNISFEVW 71
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
DL G+ +R ++ Y S ++YV+DS+ + + LY +L + +++ +L
Sbjct: 72 DLGGQTGVRP-YWRCYFSDTDAVIYVVDSTDRDR-MGVAKHELYALLDEDELRK--SLLL 127
Query: 121 VCCNKQDQTLAKSSSVVKTLLQ 142
+ NKQD A S + + L
Sbjct: 128 IFANKQDLPDAASEAEIAEQLG 149
>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*
Length = 190
Score = 56.8 bits (138), Expect = 2e-10
Identities = 26/142 (18%), Positives = 51/142 (35%), Gaps = 5/142 (3%)
Query: 1 FLFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIV 60
K++ L GL +GKT L L + +
Sbjct: 14 LASLGLWNKHGKLLFL-GLDNAGKTTLLHMLKNDRLATLQPTWHPTSEELAIGNIKFTTF 72
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
DL G + R + Y GIV+++D++ ++ + L + +++ V +
Sbjct: 73 DLGGHIQARR-LWKDYFPEVNGIVFLVDAADPER-FDEARVELDALFNIAELKD--VPFV 128
Query: 121 VCCNKQDQTLAKSSSVVKTLLQ 142
+ NK D A S + +++ L
Sbjct: 129 ILGNKIDAPNAVSEAELRSALG 150
>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial
GTPase, bacterial POL motility, POLE localisation,
alpha/beta protein; HET: GDP; 1.90A {Thermus
thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*
Length = 198
Score = 56.3 bits (136), Expect = 3e-10
Identities = 31/161 (19%), Positives = 57/161 (35%), Gaps = 23/161 (14%)
Query: 1 FLFFKFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKE--------------- 45
+ F R+ + K+V G LSGKT + +
Sbjct: 5 TINFANREINFKIVYY-GPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLP 63
Query: 46 -NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLY 104
++G K + +PG+ GIV+V DS+ + LR AES+
Sbjct: 64 LDIGEVKGFKTRFHLYTVPGQVFYN-ASRKLILRGVDGIVFVADSAPNR--LRANAESMR 120
Query: 105 VILADPQVQSSRVN---ILVCCNKQDQTLAKSSSVVKTLLQ 142
+ + ++ I++ NK+D A +V+ ++
Sbjct: 121 NMRENLAEYGLTLDDVPIVIQVNKRDLPDALPVEMVRAVVD 161
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
factor 1; structural genomics consortium, GTPase
activation; HET: GDP; 2.80A {Homo sapiens}
Length = 329
Score = 54.9 bits (132), Expect = 3e-09
Identities = 24/97 (24%), Positives = 52/97 (53%), Gaps = 4/97 (4%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV Y+ + + D+ G+D++R + Y + +G+++V+DS ++ + + E L
Sbjct: 200 NVETVEYKNISFTVWDVGGQDKIRP-LWRHYFQNTQGLIFVVDS-NDRERVNEAREELMR 257
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQ 142
+LA+ +++ +LV NKQD A +++ + L
Sbjct: 258 MLAEDELRD--AVLLVFANKQDLPNAMNAAEITDKLG 292
>3llu_A RAS-related GTP-binding protein C; structural genomics consortium,
SGC, cytoplasm, nucleotide-binding, nucleus,
phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB:
2q3f_A*
Length = 196
Score = 50.7 bits (121), Expect = 3e-08
Identities = 26/130 (20%), Positives = 57/130 (43%), Gaps = 11/130 (8%)
Query: 5 KFRKSSQKVVLLSGLSLSGKT----LLFARLVYSKYFESCTSLKENVGNFTYEKK-NIKI 59
F+ S +++L+ GL SGK+ ++F ++ ++ ++ K + + N +I
Sbjct: 15 YFQGSKPRILLM-GLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQI 73
Query: 60 VDLPGEDRLRNKFFD--QYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRV 117
D PG+ + FD ++YV+D+ Q + L++ ++ + +
Sbjct: 74 WDFPGQMDFFDPTFDYEMIFRGTGALIYVIDA---QDDYMEALTRLHITVSKAYKVNPDM 130
Query: 118 NILVCCNKQD 127
N V +K D
Sbjct: 131 NFEVFIHKVD 140
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 51.4 bits (123), Expect = 4e-08
Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 4/97 (4%)
Query: 46 NVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYV 105
NV TY+ + D+ G+D++R + Y + +G+++V+D + + + + + L+
Sbjct: 357 NVETVTYKNVKFNVWDVGGQDKIRP-LWRHYYTGTQGLIFVVDCADRDR-IDEARQELHR 414
Query: 106 ILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQ 142
I+ D +++ IL+ NKQD A ++ L
Sbjct: 415 IINDREMRD--AIILIFANKQDLPDAMKPHEIQEKLG 449
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 45.1 bits (106), Expect = 5e-06
Identities = 28/121 (23%), Positives = 54/121 (44%), Gaps = 10/121 (8%)
Query: 13 VVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEK----KNIKIVDLPGEDRL 68
+VLL G+ GK+ + ++V+ T E+ N + E ++ +++LPG+
Sbjct: 1 MVLLMGVRRCGKSSIC-KVVFHNMQPLDTLYLESTSNPSLEHFSTLIDLAVMELPGQLNY 59
Query: 69 RNKFFD--QYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNKQ 126
+D + S +VYV+D Q + +L +I+ + +NI V +K
Sbjct: 60 FEPSYDSERLFKSVGALVYVID---SQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKV 116
Query: 127 D 127
D
Sbjct: 117 D 117
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 43.3 bits (101), Expect = 3e-05
Identities = 38/262 (14%), Positives = 75/262 (28%), Gaps = 81/262 (30%)
Query: 24 KTLLFAR-------LVYSKYFESCTSLKENVGNFTYEKK--------NIKIVDLPGE--- 65
K LL R L + SL + T ++ + + DLP E
Sbjct: 267 KILLTTRFKQVTDFLSAATTTH--ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324
Query: 66 --------------------DRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVA----- 100
D ++ D+ + + + VL+ + +K ++
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 101 ----ESLYVIL---ADPQVQSSRVNILV---CCNKQDQTLAKS------SSVVKTLLQKE 144
L ++ VN L KQ + S VK +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444
Query: 145 LN--LVRRTKSNQLEDTNDVAANQ------TFLG-------NPDKDFEFSDLYNQVSF-- 187
L+ +V + D++D+ + +G +P++ F ++ F
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 188 ---CDTTGLDSASEYDVEQLQD 206
+ +AS + LQ
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQ 526
Score = 39.5 bits (91), Expect = 5e-04
Identities = 30/197 (15%), Positives = 72/197 (36%), Gaps = 38/197 (19%)
Query: 2 LFFKFRKSSQKV-----VLLSGLSLSGKTLLFARLVYSKYFESCTSLK---ENVGNFTYE 53
+ K R++ ++ VL+ G+ SGKT + + S + K N+ N
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
Query: 54 KKNIKIVDLPGEDRLRNKFFDQYKSSAKGIV-YVLDSSTVQKTLRDV------AESLYVI 106
+ ++++ +L + + S + L ++Q LR + L ++
Sbjct: 196 ETVLEML-----QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LV 249
Query: 107 LADPQVQSSRV--------NILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLED 158
L + VQ+++ IL+ + + + S T ++L + + ++
Sbjct: 250 LLN--VQNAKAWNAFNLSCKILL--TTRFKQVTDFLSAATT---THISLDHHSMTLTPDE 302
Query: 159 TNDVAANQTFLGNPDKD 175
+ +L +D
Sbjct: 303 VKSLLLK--YLDCRPQD 317
Score = 27.9 bits (61), Expect = 3.1
Identities = 28/197 (14%), Positives = 55/197 (27%), Gaps = 46/197 (23%)
Query: 54 KKNIK-IVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQV 112
K+ I I+ + F S + +V ++ + + + P +
Sbjct: 48 KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107
Query: 113 QSSRVNILVCCNKQDQTLAKSSSVVK---TLLQKELNLVRRTKSNQLED----------- 158
+ ++D+ + K + LQ L L R +L
Sbjct: 108 MTRMYI-----EQRDRLYNDNQVFAKYNVSRLQPYLKL--RQALLELRPAKNVLIDGVLG 160
Query: 159 ------TNDVAANQTF------------LGN---PDKDFE-FSDLYNQVSFCDTTGLDSA 196
DV + L N P+ E L Q+ T+ D +
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 197 S--EYDVEQLQDWMVTL 211
S + + +Q + L
Sbjct: 221 SNIKLRIHSIQAELRRL 237
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 42.7 bits (100), Expect = 4e-05
Identities = 22/123 (17%), Positives = 43/123 (34%), Gaps = 11/123 (8%)
Query: 14 VLLSGLSLSGKT----LLFARLVYSKYFESCTSLKENVGNFTYEKK-NIKIVDLPGEDRL 68
+LL G S SGK+ ++F+ ++ + + + + D G+D
Sbjct: 6 LLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVF 65
Query: 69 RNKFFDQYK----SSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCN 124
+F + K + +++V D + E L + S I V +
Sbjct: 66 MENYFTKQKDHIFQMVQVLIHVFDVE--STEVLKDIEIFAKALKQLRKYSPDAKIFVLLH 123
Query: 125 KQD 127
K D
Sbjct: 124 KMD 126
>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron
transport, GTPase, transmembrane, potassium; HET: GGM;
1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A*
3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*
Length = 272
Score = 38.1 bits (89), Expect = 0.001
Identities = 30/145 (20%), Positives = 56/145 (38%), Gaps = 41/145 (28%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK--------NIKIVDLPG------ 64
SGKT LF + T + VGN+ T E+K +++I DLPG
Sbjct: 14 SGKTSLFNLI---------TGHNQRVGNWPGVTVERKSGLVKKNKDLEIQDLPGIYSMSP 64
Query: 65 ---EDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILV 121
E ++ + A I+ V+D++ +++ +LY+ Q+ + + + +
Sbjct: 65 YSPEAKVARDYL--LSQRADSILNVVDATNLER-------NLYLTT---QLIETGIPVTI 112
Query: 122 CCNKQDQTLAKSSSVVKTLLQKELN 146
N D + + L L
Sbjct: 113 ALNMIDVLDGQGKKINVDKLSYHLG 137
>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain,
acetylation, ADP- ribosylation, alternative splicing,
cell cycle, cell division; 2.40A {Homo sapiens}
Length = 227
Score = 37.7 bits (87), Expect = 0.001
Identities = 16/92 (17%), Positives = 29/92 (31%), Gaps = 4/92 (4%)
Query: 61 DLPGEDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
+ + + G +YV ++ ++ S + + DP SS +L
Sbjct: 108 QQGSRYSVIPQIQ-KVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLL 166
Query: 121 V-CCNKQDQTLAKSSSVVKTLLQKELNLVRRT 151
V C Q + L LNL+
Sbjct: 167 VLSCISQGDVKRMPCFYLAHELH--LNLLNHP 196
>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell
membrane, ION transport, transmembrane; HET: GNP; 1.90A
{Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*
Length = 165
Score = 36.7 bits (86), Expect = 0.002
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 44/147 (29%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NIKIVDLPG----- 64
GK+ +F L T +GN+ T EKK K+VDLPG
Sbjct: 14 VGKSTIFNAL---------TGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLT 64
Query: 65 -----EDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNI 119
E R+ ++ +V ++D++ +++ +LY+ L Q+ N+
Sbjct: 65 ANSIDEIIARDYIINE---KPDLVVNIVDATALER-------NLYLTL---QLMEMGANL 111
Query: 120 LVCCNKQDQTLAKSSSVVKTLLQKELN 146
L+ NK D + + L+K L
Sbjct: 112 LLALNKMDLAKSLGIEIDVDKLEKILG 138
>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane
G-proteins, cell membrane, ION transport, transmembrane;
HET: GDP; 2.20A {Methanocaldococcus jannaschii}
Length = 188
Score = 36.8 bits (86), Expect = 0.002
Identities = 31/146 (21%), Positives = 56/146 (38%), Gaps = 42/146 (28%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NIKIVDLPG----- 64
GK+ +F L T +GN+ T EKK K+VDLPG
Sbjct: 18 VGKSTIFNAL---------TGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLT 68
Query: 65 ----EDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
++ + + +V ++D++ +++ +LY+ L Q+ N+L
Sbjct: 69 ANSIDEIIARDYI--INEKPDLVVNIVDATALER-------NLYLTL---QLMEMGANLL 116
Query: 121 VCCNKQDQTLAKSSSVVKTLLQKELN 146
+ NK D + + L+K L
Sbjct: 117 LALNKMDLAKSLGIEIDVDKLEKILG 142
>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase,
G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima}
PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A
Length = 258
Score = 36.9 bits (86), Expect = 0.003
Identities = 33/146 (22%), Positives = 56/146 (38%), Gaps = 42/146 (28%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NIKIVDLPG----- 64
GKT LF L T K+ V N+ T EKK I ++DLPG
Sbjct: 16 VGKTSLFNAL---------TGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLG 66
Query: 65 ----EDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNIL 120
++++ + K A ++ V DS ++ SLY++L ++ ++
Sbjct: 67 YSSIDEKIARDYL--LKGDADLVILVADSVNPEQ-------SLYLLL---EILEMEKKVI 114
Query: 121 VCCNKQDQTLAKSSSVVKTLLQKELN 146
+ D+ + + LQK L
Sbjct: 115 LAMTAIDEAKKTGMKIDRYELQKHLG 140
>3iby_A Ferrous iron transport protein B; G protein, G domain, iron
uptake, cell inner membrane, cell GTP-binding, ION
transport, membrane; 2.50A {Legionella pneumophila}
Length = 256
Score = 36.5 bits (85), Expect = 0.003
Identities = 20/55 (36%), Positives = 24/55 (43%), Gaps = 21/55 (38%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NIKIVDLPG 64
GKT LF L T+ + VGN+ T EKK I+I DLPG
Sbjct: 12 CGKTTLFNAL---------TNANQRVGNWPGVTVEKKTGEFLLGEHLIEITDLPG 57
>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO,
cell inner membrane, cell ME GTP-binding, ION transport,
membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A*
3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*
Length = 274
Score = 36.5 bits (85), Expect = 0.003
Identities = 33/151 (21%), Positives = 56/151 (37%), Gaps = 48/151 (31%)
Query: 22 SGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NIKIVDLPG----- 64
SGKT LF +L T ++ VGN+ T E+K + +VDLPG
Sbjct: 14 SGKTTLFNQL---------TGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLT 64
Query: 65 ---------EDRLRNKFFDQYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSS 115
E + A ++ V+D+S +++ +LY+ L Q+
Sbjct: 65 TISSQTSLDEQIACHYILSG---DADLLINVVDASNLER-------NLYLTL---QLLEL 111
Query: 116 RVNILVCCNKQDQTLAKSSSVVKTLLQKELN 146
+ +V N D ++ + L L
Sbjct: 112 GIPCIVALNMLDIAEKQNIRIEIDALSARLG 142
>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle,
G-protein, prokaryote, GTP-BIND nucleotide-binding,
metal transport; 2.70A {Pyrococcus furiosus}
Length = 271
Score = 36.5 bits (85), Expect = 0.003
Identities = 23/67 (34%), Positives = 29/67 (43%), Gaps = 21/67 (31%)
Query: 10 SQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNF---TYEKK---------NI 57
K V L G GKT +F L T L+++VGN+ T EKK
Sbjct: 2 VLKTVALVGNPNVGKTTIFNAL---------TGLRQHVGNWPGVTVEKKEGIMEYREKEF 52
Query: 58 KIVDLPG 64
+VDLPG
Sbjct: 53 LVVDLPG 59
>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation
pathway, ubiquitin Pro ligase, protein binding-cell
cycle complex; 2.80A {Homo sapiens}
Length = 312
Score = 35.9 bits (82), Expect = 0.006
Identities = 16/78 (20%), Positives = 27/78 (34%), Gaps = 3/78 (3%)
Query: 75 QYKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQSSRVNILV-CCNKQDQTLAKS 133
+ G +YV ++ ++ S + + DP SS +LV C Q
Sbjct: 206 KVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMP 265
Query: 134 SSVVKTLLQKELNLVRRT 151
+ L LNL+
Sbjct: 266 CFYLAHELH--LNLLNHP 281
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.0 bits (74), Expect = 0.029
Identities = 10/47 (21%), Positives = 20/47 (42%), Gaps = 21/47 (44%)
Query: 53 EKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIVYVLDSS---TVQKTL 96
EK+ +K +L ++S K +Y DS+ ++ T+
Sbjct: 18 EKQALK--------KL--------QASLK--LYADDSAPALAIKATM 46
>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC,
coiled coil, GTP- binding, nucleotide-binding, immune
system; HET: GDP; 2.15A {Homo sapiens}
Length = 239
Score = 32.3 bits (73), Expect = 0.071
Identities = 18/115 (15%), Positives = 44/115 (38%), Gaps = 15/115 (13%)
Query: 8 KSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKE-----NVGNFTYEKKNIKIVDL 62
++SQ ++L G + +GK+ ++ K F S T+ K + ++++ + +VD
Sbjct: 26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELVVVDT 85
Query: 63 PG-------EDRLRNKFFDQYKSSAKG---IVYVLDSSTVQKTLRDVAESLYVIL 107
PG + ++ G ++ V+ + E + +
Sbjct: 86 PGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMF 140
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.37
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 2/53 (3%)
Query: 125 KQDQTLAKSSSVVKTLLQKELNLVRRTKSNQLEDT--NDVAANQTFLGNPDKD 175
+ D + +K+L + +S Q+E N+ A++ F PD D
Sbjct: 100 ELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDAD 152
>3lxw_A GTPase IMAP family member 1; immunity, structural genomics
consortium, SGC, immune system; HET: GDP; 2.21A {Homo
sapiens} PDB: 3v70_A*
Length = 247
Score = 30.0 bits (67), Expect = 0.43
Identities = 19/119 (15%), Positives = 42/119 (35%), Gaps = 16/119 (13%)
Query: 5 KFRKSSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKE-----NVGNFTYEKKNIKI 59
F+ S + ++L G + +GK+ ++ + F S G+ ++K ++++
Sbjct: 15 YFQGESTRRLILVGRTGAGKSATGNSILGQRRFFSRLGATSVTRACTTGSRRWDKCHVEV 74
Query: 60 VDLPG--------EDRLRNKFFDQYKSSAKG---IVYVLDSSTVQKTLRDVAESLYVIL 107
VD P D + Y SA G ++ V + + +
Sbjct: 75 VDTPDIFSSQVSKTDPGCEERGHCYLLSAPGPHALLLVTQLGRFTAQDQQAVRQVRDMF 133
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 29.4 bits (67), Expect = 0.73
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 99 VAESLYVILADPQVQSSRVNI 119
V +L V+L DP V+ +NI
Sbjct: 289 VYNALKVVLKDPDVKGVFINI 309
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP
binding motif, ATP- binding, nucleotide-binding,
transferase; HET: ADP; 1.79A {Methanocaldococcus
jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A*
3adb_A*
Length = 260
Score = 29.4 bits (66), Expect = 0.75
Identities = 13/86 (15%), Positives = 34/86 (39%), Gaps = 3/86 (3%)
Query: 13 VVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKF 72
+++L+GL GK+ L K +G+ +++ + E+ ++
Sbjct: 6 LIILTGLPGVGKSTFSKNLA--KILSKNNIDVIVLGSDLI-RESFPVWKEKYEEFIKKST 62
Query: 73 FDQYKSSAKGIVYVLDSSTVQKTLRD 98
+ S+ K ++D + ++R
Sbjct: 63 YRLIDSALKNYWVIVDDTNYYNSMRR 88
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 29.4 bits (66), Expect = 0.77
Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 17/93 (18%)
Query: 12 KVVLLSGLSLSGKTLLFARL------VYSKYFESCTSLKENVGNFTYEKKNIKIVDLPG- 64
V+++G GK+ L L + S F T+ NVG F +I+D PG
Sbjct: 168 PTVVIAGHPNVGKSTLLKALTTAKPEIASYPF---TTRGINVGQFEDGYFRYQIIDTPGL 224
Query: 65 -----EDR--LRNKFFDQYKSSAKGIVYVLDSS 90
+R + + + I+Y+ D S
Sbjct: 225 LDRPISERNEIEKQAILALRYLGNLIIYIFDPS 257
>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE;
1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A
Length = 260
Score = 28.9 bits (64), Expect = 1.0
Identities = 20/114 (17%), Positives = 42/114 (36%), Gaps = 15/114 (13%)
Query: 9 SSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKE-----NVGNFTYEKKNIKIVDLP 63
S+ ++L G + +GK+ ++ + FES + + ++ + I I+D P
Sbjct: 20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIVIIDTP 79
Query: 64 G-------EDRLRNKFFDQYKSSAKG---IVYVLDSSTVQKTLRDVAESLYVIL 107
+ L + Y SA G ++ V + A+ + I
Sbjct: 80 DMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIF 133
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 29.0 bits (65), Expect = 1.1
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 9/59 (15%)
Query: 12 KVVLLSGLSLSGKTLLFARL------VYSKYFESCTSLKENVGNFTYEKKNIKIVDLPG 64
K ++LSG GK+ + V S F T+ VG+F ++ +I+D PG
Sbjct: 30 KTIILSGAPNVGKSSFMNIVSRANVDVQSYSF---TTKNLYVGHFDHKLNKYQIIDTPG 85
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 28.9 bits (64), Expect = 1.2
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 11 QKVVLLSGLSLSGKTLLFARLV 32
+K++L G SGK+ +
Sbjct: 2 KKIILTIGCPGSGKSTWAREFI 23
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 28.2 bits (63), Expect = 1.6
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 11 QKVVLLSGLSLSGKTLLFARLV 32
+K++L G SGK+ +
Sbjct: 2 KKIILTIGCPGSGKSTWAREFI 23
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 27.7 bits (61), Expect = 2.0
Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 5/61 (8%)
Query: 9 SSQKVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVGNFTYEKKNIKIVDLPGEDRL 68
++ V + G SGKT L + V VG + + G D +
Sbjct: 2 NAMNVWQVVGYKHSGKTTLMEKWV--AAA---VREGWRVGTVKHHGHGGEPARPEGVDSV 56
Query: 69 R 69
R
Sbjct: 57 R 57
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 27.8 bits (61), Expect = 2.2
Identities = 5/16 (31%), Positives = 13/16 (81%)
Query: 10 SQKVVLLSGLSLSGKT 25
+ ++++L+G S +GK+
Sbjct: 2 TTRMIILNGGSSAGKS 17
>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2,
ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding,
GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB:
3d6t_B*
Length = 184
Score = 27.3 bits (61), Expect = 3.0
Identities = 22/151 (14%), Positives = 52/151 (34%), Gaps = 30/151 (19%)
Query: 12 KVVLLSGLSLSGKTLLFARLVYSKYFESCTSLKENVG-NFTYEKKNIKIVDLPGEDRLRN 70
K++++ G + SGKT L +L+ +K VG + + + + +
Sbjct: 4 KLMIV-GNTGSGKTTLLQQLMKTK-KSDLGMQSATVGIDVK-----DWPIQIRDKRKRDL 56
Query: 71 KFFDQ----------------YKSSAKGIVYVLDSSTVQKTLRDVAESLYVILADPQVQS 114
+ + + V D S Q + +++ L + + ++
Sbjct: 57 VL--NVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEV----DAMKPWLFNIKARA 110
Query: 115 SRVNILVCCNKQDQTLAKSSSVVKTLLQKEL 145
S +++ D + K + + KEL
Sbjct: 111 SSSPVILVGTHLDVSDEKQRKACMSKITKEL 141
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 27.3 bits (61), Expect = 3.3
Identities = 18/97 (18%), Positives = 31/97 (31%), Gaps = 20/97 (20%)
Query: 49 NFTYEKKNIKIVDLPG-------EDRLRNKF-------FDQYKSSAKGIVYVLDSSTVQK 94
E KN KI+D+PG ++ + + + V V+D +
Sbjct: 39 IE-IEWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPE 97
Query: 95 TLRDVAESLYVILADPQV----QSSRVNILVCCNKQD 127
E I D + + + +V NK D
Sbjct: 98 I-IKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLD 133
>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral
signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A
{Homo sapiens}
Length = 372
Score = 27.0 bits (60), Expect = 5.0
Identities = 10/73 (13%), Positives = 28/73 (38%), Gaps = 9/73 (12%)
Query: 87 LDSSTVQKTLRDVAESLYVILADPQVQSSRVNILVCCNK-QDQTLAKSSSVVKTLLQKEL 145
+ + + + + + L + S ++ L + Q+Q + V+ +L ++L
Sbjct: 22 IKNLDALENAQAIKKKLGKLGRQVLPPSELLDHLFFHYEFQNQRFSA--EVLSSL--RQL 77
Query: 146 NLVRRTKSNQLED 158
NL ++
Sbjct: 78 NL----AGVRMTP 86
>4fdw_A Leucine rich hypothetical protein; putative cell surface protein,
BIG3 domain, LRR domain, STRU genomics; 2.05A
{Bacteroides ovatus} PDB: 4fd0_A
Length = 401
Score = 26.2 bits (58), Expect = 8.3
Identities = 8/48 (16%), Positives = 13/48 (27%)
Query: 37 FESCTSLKENVGNFTYEKKNIKIVDLPGEDRLRNKFFDQYKSSAKGIV 84
F S + + T E K R+ N + I+
Sbjct: 72 FSSSVPVDKQEVTITIEGKQKSFSVHISPVRVENGVLTEILKGYNEII 119
>2uz0_A Esterase, tributyrin esterase; alpha/beta hydrolase, hydrolase, A
virulence facto LUNG infection; HET: MSE; 1.7A
{Streptococcus pneumoniae}
Length = 263
Score = 26.2 bits (58), Expect = 8.8
Identities = 10/56 (17%), Positives = 22/56 (39%)
Query: 96 LRDVAESLYVILADPQVQSSRVNILVCCNKQDQTLAKSSSVVKTLLQKELNLVRRT 151
+RD S Y + + + + + C +QD ++ VK L + ++
Sbjct: 176 IRDWTTSPYSLESLAKKSDKKTKLWAWCGEQDFLYEANNLAVKNLKKLGFDVTYSH 231
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.132 0.364
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,873,375
Number of extensions: 150313
Number of successful extensions: 432
Number of sequences better than 10.0: 1
Number of HSP's gapped: 380
Number of HSP's successfully gapped: 61
Length of query: 211
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 122
Effective length of database: 4,216,824
Effective search space: 514452528
Effective search space used: 514452528
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: 55 (25.1 bits)