RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy610
(128 letters)
>1p2x_A RNG2 protein, RAS GTPase-activating-like protein; helices, bundle,
protein binding; 2.21A {Schizosaccharomyces pombe} SCOP:
a.40.1.1
Length = 159
Score = 48.3 bits (115), Expect = 4e-08
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 2/81 (2%)
Query: 37 ISVLNLPPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVI 96
+ + + + F DN++ F+ + +G+ E FE D+ KN VI
Sbjct: 48 VQKFQPDKLIKIFYSNELQFRHSDNINKFLDFIHG-IGLPEIFHFELTDIYEGKNLPKVI 106
Query: 97 LCLLEIISGEKFEISKTPPKK 117
C+ +S PP
Sbjct: 107 YCIHA-LSYFLSMQDLAPPLI 126
>3i6x_A P195, RAS GTPase-activating-like protein iqgap1; all helical,
calmodulin-binding, cell membrane, membrane,
phosphoprotein, protein binding; 2.50A {Homo sapiens}
Length = 193
Score = 48.5 bits (115), Expect = 4e-08
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 51 AKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
A F DNV ++ +G+ + ET D+ RKN I C+ +
Sbjct: 107 ATGLHFRHTDNVIQWLNAMDE-IGLPKIFYPETTDIYDRKNMPRCIYCIHAL 157
>1p5s_A RAS GTPase-activating-like protein RNG2; alpha-helical bundle,
cytokine; 2.22A {Schizosaccharomyces pombe} SCOP:
a.40.1.1
Length = 203
Score = 48.4 bits (115), Expect = 5e-08
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 2/81 (2%)
Query: 37 ISVLNLPPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVI 96
+ + + + F DN++ F+ + +G+ E FE D+ KN VI
Sbjct: 92 VQKFQPDKLIKIFYSNELQFRHSDNINKFLDFIHG-IGLPEIFHFELTDIYEGKNLPKVI 150
Query: 97 LCLLEIISGEKFEISKTPPKK 117
C+ +S PP
Sbjct: 151 YCIHA-LSYFLSMQDLAPPLI 170
>1wyp_A Calponin 1; CH domain, F-actin binding, all-alpha, structural
genomics, NPPSFA, riken structural genomics/proteomics
initiative, RSGI; NMR {Homo sapiens}
Length = 136
Score = 47.2 bits (112), Expect = 5e-08
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 53 PGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
+ +N+ NFI + GV +FE +DL N V LL +
Sbjct: 67 TQNWHQLENIGNFIKAITK-YGVKPHDIFEANDLFENTNHTQVQSTLLAL 115
>1wyn_A Calponin-2; CH domain, F-actin binding, all alpha helix, structural
genomics, NPPSFA, riken structural genomics/proteomics
initiative, RSGI; NMR {Homo sapiens}
Length = 146
Score = 47.2 bits (112), Expect = 7e-08
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 52 KPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
+ +N+SNFI G+ LFE +DL N V + LL +
Sbjct: 66 SMQNWHQLENLSNFIKAMVS-YGMNPVDLFEANDLFESGNMTQVQVSLLAL 115
>2rr8_A Iqgap1 protein; F-actin binding protein, protein binding; NMR {Homo
sapiens}
Length = 190
Score = 47.6 bits (113), Expect = 7e-08
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 43 PPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLE 101
+ A F DNV ++ +G+ + ET D+ RKN I C+
Sbjct: 77 DREQTRYKATGLHFRHTDNVIQWLNAMDE-IGLPKIFYPETTDIYDRKNMPRCIYCIHA 134
>1ujo_A Transgelin; CH domain, actin binding, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
structural protein; NMR {Mus musculus} SCOP: a.40.1.1
Length = 144
Score = 46.5 bits (110), Expect = 1e-07
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 43 PPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
PVK F + V+ F+ + GV + +F+T DL K+ V L+ +
Sbjct: 59 KPVKVPENPPSMVFKQMEQVAQFLKAAED-YGVIKTDMFQTVDLYEGKDMAAVQRTLMAL 117
>1h67_A Calponin alpha; cytoskeleton, calponin homology domain, actin
binding,; NMR {Gallus gallus} SCOP: a.40.1.1
Length = 108
Score = 45.5 bits (108), Expect = 2e-07
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 52 KPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
+ +N+ NF+ + GV +FE +DL N V L+ +
Sbjct: 52 PVQNWHKLENIGNFLRAIKH-YGVKPHDIFEANDLFENTNHTQVQSTLIAL 101
>1wym_A Transgelin-2; CH domain, F-actin binding, all helix, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, NPPSFA; NMR {Homo sapiens}
Length = 155
Score = 45.0 bits (106), Expect = 6e-07
Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 43 PPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
PVK A F + +S F+ + R G+ +F+T DL KN V L+ +
Sbjct: 67 APVKK-IQASTMAFKQMEQISQFLQAAER-YGINTTDIFQTVDLWEGKNMACVQRTLMNL 124
>2l3g_A RHO guanine nucleotide exchange factor 7; structural genomics,
northeast structural genomics consortiu PSI-biology,
calponin-homology domain; NMR {Homo sapiens}
Length = 126
Score = 40.8 bits (95), Expect = 1e-05
Identities = 8/58 (13%), Positives = 19/58 (32%), Gaps = 3/58 (5%)
Query: 45 VKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
++ + N+ F+ F+ +DL +N V+ L+ +
Sbjct: 63 IEKVYPEPRSESECLSNIREFLRGCG---ASLRLETFDANDLYQGQNFNKVLSSLVTL 117
>1wyr_A RHO guanine nucleotide exchange factor 6; CH domain, all-alpha,
NPPSFA, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
Length = 121
Score = 37.6 bits (87), Expect = 2e-04
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 45 VKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNEKHVILCLLEI 102
V+ +N+++F+ +G + +F+ DDL N V+ LL +
Sbjct: 57 VEKFCLDPQTEADCINNINDFL----KGCATLQVEIFDPDDLYSGVNFSKVLSTLLAV 110
>2ck3_G ATP synthase subunit gamma\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: c.49.2.1 PDB: 1cow_G*
1bmf_G* 1e1q_G* 1e1r_G* 1efr_G* 1e79_G* 1h8h_G* 1nbm_G*
1ohh_G* 1qo1_G 1w0j_G* 1w0k_G* 1h8e_G* 2jiz_G* 2jj1_G*
2jj2_G* 2v7q_G* 2wss_G* 2xnd_G* 2w6j_G ...
Length = 272
Score = 31.3 bits (72), Expect = 0.059
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 12/55 (21%)
Query: 13 NVRRYAEEHMAKRQAQGKDVHSIAISVLNLPPVKHLPGAKPGTFFARDNVSNFIG 67
+V + + A A GK+V I + G K + R + F+
Sbjct: 84 SVAKQMKSEAANLAAAGKEVKIIGV------------GDKIRSILHRTHSDQFLV 126
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 31.2 bits (70), Expect = 0.083
Identities = 25/125 (20%), Positives = 40/125 (32%), Gaps = 47/125 (37%)
Query: 33 H-SIAISVLNLPP-------------VKHLPGAKPGTFFARDN--------VSNFIGW-- 68
H S+ +L +P K LP +P FA D+ V F+G+
Sbjct: 13 HGSLEHVLL-VPTASFFIASQLQEQFNKILP--EPTEGFAADDEPTTPAELVGKFLGYVS 69
Query: 69 ---SRRGLGVFECLL------FETDDLIMRKNEKHVILCLLEIISGEKFEISKTPPKK-- 117
+G F+ +L FE + N+ H + L + T K
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENC--YLEGNDIHALAAKLLQEN------DTTLVKTKE 121
Query: 118 -LNTY 121
+ Y
Sbjct: 122 LIKNY 126
Score = 30.4 bits (68), Expect = 0.15
Identities = 26/128 (20%), Positives = 39/128 (30%), Gaps = 46/128 (35%)
Query: 28 QGKDVHSIAISVLN-----LPPVKHL-------------PGAKPGT--FF--ARDNVSNF 65
+G D+H++A +L L K L P K F + +
Sbjct: 97 EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 66 I---GWSRRGLGV----FECL--LFET-----DDLIMRKNEKHVILCLLEIISGEKFEIS 111
+ G G G FE L L++T DLI L + +
Sbjct: 157 VAIFG----GQGNTDDYFEELRDLYQTYHVLVGDLI------KFSAETLSELIRTTLDAE 206
Query: 112 KTPPKKLN 119
K + LN
Sbjct: 207 KVFTQGLN 214
>3oaa_G ATP synthase gamma chain; rossmann fold, hydrolase,
hydrolase-transport PROT complex; HET: ANP ADP; 3.26A
{Escherichia coli DH1}
Length = 286
Score = 30.9 bits (71), Expect = 0.084
Identities = 10/59 (16%), Positives = 16/59 (27%), Gaps = 15/59 (25%)
Query: 12 NNVRRYAEEHMAKRQAQGKDVHSIAISVLNLPPVKHLPGAKPGTFFARDN---VSNFIG 67
N+ + M +G I G+K +FF V+ G
Sbjct: 92 INLFKKLLAEMKTWTDKGVQCDLAMI------------GSKGVSFFNSVGGNVVAQVTG 138
>2qe7_G ATP synthase subunit gamma; blockage of ATP hydrolysis, F1-ATPase,
single analysis, thermoalkaliphilic, hydrolase; 3.06A
{Bacillus SP}
Length = 286
Score = 30.6 bits (70), Expect = 0.098
Identities = 8/57 (14%), Positives = 16/57 (28%), Gaps = 12/57 (21%)
Query: 13 NVRRYAEEHMAKRQAQGKDVHSIAISVLNLPPVKHLPGAKPGTFFARDNVSNFIGWS 69
N+ R + + +R + A+ G K FF + +
Sbjct: 94 NILRLVSKTIEERHQSKDEYVIFAV------------GRKGRDFFKKRGYPVVEEVT 138
>1fs0_G ATP synthase gamma subunit; coiled coil, epsilon, hydrolase; 2.10A
{Escherichia coli} SCOP: c.49.2.1
Length = 230
Score = 30.6 bits (70), Expect = 0.10
Identities = 8/58 (13%), Positives = 15/58 (25%), Gaps = 12/58 (20%)
Query: 12 NNVRRYAEEHMAKRQAQGKDVHSIAISVLNLPPVKHLPGAKPGTFFARDNVSNFIGWS 69
N+ + M +G I G+K +FF + +
Sbjct: 75 INLFKKLLAEMKTWTDKGVQCDLAMI------------GSKGVSFFNSVGGNVVAQVT 120
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 27.7 bits (61), Expect = 1.1
Identities = 18/83 (21%), Positives = 29/83 (34%), Gaps = 7/83 (8%)
Query: 33 HSIAISVLNLPPVKHLPGAKPGTFFARDNVSNFIGWSRRGLGVFECLLFETDDLIMRKNE 92
H+I + +NL P + F N+ F+ G+ LFE DL ++
Sbjct: 56 HAINLREVNLRP-------QMSQFLCLKNIRTFLSTCCEKFGLKRSELFEAFDLFDVQDF 108
Query: 93 KHVILCLLEIISGEKFEISKTPP 115
VI L + + P
Sbjct: 109 GKVIYTLSALSWTPIAQNRGIMP 131
>1pxy_A Fimbrin-like protein; calponin homology, F-actin-binding domain
(ABD), F-actin- crosslinking, structural genomics; 2.40A
{Arabidopsis thaliana} SCOP: a.40.1.1 PDB: 3byh_B
Length = 506
Score = 26.2 bits (57), Expect = 3.7
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 95 VILC-LLEIISGEKF-EISKTPPKKLNTYTIL 124
V+LC L+ + E + + LN +
Sbjct: 47 VLLCKLINVAVPGTIDERAINTKRVLNPWERN 78
>1aoa_A T-fimbrin; actin-binding protein, calcium-binding, phosphorylation;
2.40A {Homo sapiens} SCOP: a.40.1.1 a.40.1.1
Length = 275
Score = 25.3 bits (55), Expect = 6.1
Identities = 6/31 (19%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 95 VILC-LLEIISGEKFEISKTPPKKLNTYTIL 124
++LC ++ + + + KKL + I
Sbjct: 64 IVLCKMINLSVPDTIDERAINKKKLTPFIIQ 94
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
0.324 0.140 0.434
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,929,203
Number of extensions: 102660
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 22
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.8 bits)