RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17879
(154 letters)
>1ujs_A Actin-binding LIM protein homologue; VHP domain, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, structural protein; NMR {Homo sapiens}
SCOP: a.14.1.1 PDB: 2l3x_A
Length = 88
Score = 99.2 bits (247), Expect = 2e-28
Identities = 39/80 (48%), Positives = 48/80 (60%), Gaps = 3/80 (3%)
Query: 78 RSLPNMSQPMSLEPPKIYPYHLLIITNY---RLPPDVDRKNLERHLSDVEFETLFLCTRA 134
+ + KIYPY LL++T RLP DVDR LERHLS EF +F T +
Sbjct: 3 SGSSGNAVNWGMREYKIYPYELLLVTTRGRNRLPKDVDRTRLERHLSQEEFYQVFGMTIS 62
Query: 135 EFYRLPTWRRNDLKKRARLF 154
EF RL W+RN+LKK+ARLF
Sbjct: 63 EFDRLALWKRNELKKQARLF 82
>1qzp_A Dematin; villin headpiece, actin binding domain, protein binding;
NMR {Homo sapiens} SCOP: a.14.1.1 PDB: 1zv6_A
Length = 68
Score = 94.8 bits (236), Expect = 8e-27
Identities = 33/65 (50%), Positives = 45/65 (69%), Gaps = 3/65 (4%)
Query: 93 KIYPYHLLIITN---YRLPPDVDRKNLERHLSDVEFETLFLCTRAEFYRLPTWRRNDLKK 149
+IYPY +L++TN +LPP VDR LERHLS +F +F + EF +L W+RN+LKK
Sbjct: 4 QIYPYEMLVVTNKGRTKLPPGVDRMRLERHLSAEDFSRVFAMSPEEFGKLALWKRNELKK 63
Query: 150 RARLF 154
+A LF
Sbjct: 64 KASLF 68
>2k6m_S Supervillin; SVHP, HP, headpiece, archvillin, actin capping,
actin-binding, alternative splicing, calcium, cytoplasm,
cytoskeleton, membrane; NMR {Homo sapiens} PDB: 2k6n_A
Length = 67
Score = 93.2 bits (232), Expect = 4e-26
Identities = 25/62 (40%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 93 KIYPYHLLIITNYRLPPDVDRKNLERHLSDVEFETLFLCTRAEFYRLPTWRRNDLKKRAR 152
IYP L+ LP VD LE +L+D +FE TR E+ LP W++ +LKK
Sbjct: 8 TIYPLADLLARP--LPEGVDPLKLEIYLTDEDFEFALDMTRDEYNALPAWKQVNLKKAKG 65
Query: 153 LF 154
LF
Sbjct: 66 LF 67
>1yu8_X Villin; alpha helix, 3-10 helix, structural protein; 1.45A {Gallus
gallus} SCOP: a.14.1.1 PDB: 1qqv_A 1yu5_X 2rjx_A 2rjy_A
1yu7_X 2rjv_A 2rjw_A 3nkj_A 3myc_A 3mya_A 3mye_X 1unc_A
Length = 67
Score = 87.9 bits (218), Expect = 4e-24
Identities = 25/64 (39%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 92 PKIYPYHLLIITNYR-LPPDVDRKNLERHLSDVEFETLFLCTRAEFYRLPTWRRNDLKKR 150
+ +P +L+ T LP VD E HLSD +F+ +F TR+ F LP W++ +LKK
Sbjct: 4 LETFPLDVLVNTAAEDLPRGVDPSAKENHLSDEDFKAVFGMTRSAFANLPLWKQQNLKKE 63
Query: 151 ARLF 154
LF
Sbjct: 64 KGLF 67
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton,
headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1
Length = 37
Score = 66.2 bits (162), Expect = 6e-16
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 119 HLSDVEFETLFLCTRAEFYRLPTWRRNDLKKRARLF 154
+LS+ +F ++F TR +F LP W++ +KK LF
Sbjct: 2 YLSEQDFVSVFGITRGQFAALPGWKQLQMKKEKGLF 37
>1wy3_A Villin; structural protein; HET: NLE; 0.95A {Synthetic} PDB: 1wy4_A
1yri_A* 1yrf_A* 2f4k_A* 1vii_A 3trv_A* 3trw_A 3tjw_B*
3trv_B* 3try_A* 2ppz_A 2jm0_A* 3tjw_A* 3iur_B*
Length = 35
Score = 60.8 bits (148), Expect = 8e-14
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 120 LSDVEFETLFLCTRAEFYRLPTWRRNDLKKRARLF 154
LSD +F+ +F TR+ F LP W + LKK LF
Sbjct: 1 LSDEDFKAVFGMTRSAFANLPLWLQQHLKKEKGLF 35
>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 = 36.6 bits (84), Expect = 0.002
Identities = 28/156 (17%), Positives = 50/156 (32%), Gaps = 57/156 (36%)
Query: 11 QPYSLFNLHPQLTLFSTFTVSNG--------SIYDL-HSNIHPH-----HHVP------- 49
+ Y +L P + S + N SI +L + + H+P
Sbjct: 312 EAYPNTSLPPSILEDS---LENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI 368
Query: 50 ---NG-------GAPELPVSSTYAGSLGYAASYSNHIQRSLPNMSQ---PMSLEPPKIY- 95
NG G P+ SL Y + + ++ + Q P S K
Sbjct: 369 SLVNGAKNLVVSGPPQ---------SL-YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 96 -------PYH--LLIITNYRLPPDVDRKNLERHLSD 122
P+H LL+ + + D+ + N+ + D
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Score = 30.0 bits (67), Expect = 0.35
Identities = 26/138 (18%), Positives = 46/138 (33%), Gaps = 34/138 (24%)
Query: 28 FTVSNGSIYDLHSNIHPHHHVPNGGAPELPVSSTYAGSLGYAAS-YSNHIQRSLPNMSQP 86
T+S+GS+ H L V + + + AS + LP ++
Sbjct: 9 LTLSHGSLE--HV---------------LLVPT----ASFFIASQLQEQFNKILPEPTEG 47
Query: 87 MSLEPPKIYPYHLLI-----ITNYRLPPDVDRKN--LERHLSDVEFETLFLCTR---AEF 136
+ + P L+ +++ P V + + L L+ EFE +L A
Sbjct: 48 FAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLT--EFENCYLEGNDIHALA 105
Query: 137 YRLPTWRRNDLKKRARLF 154
+L L K L
Sbjct: 106 AKLLQENDTTLVKTKELI 123
>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 = 35.2 bits (80), Expect = 0.007
Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 22/97 (22%)
Query: 54 PELPVSSTYAGSLGYAASYSNHIQRSLPNMSQPMSLEPPKIYPYHLLIITNYRLPPDVDR 113
+ V+ + SL S+P++ + ++ Y H I+ +Y +P D
Sbjct: 404 VMVVVNKLHKYSL--VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 114 KNLE-------------RHLSDVE-------FETLFL 130
+L HL ++E F +FL
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL 498
>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 = 30.3 bits (67), Expect = 0.14
Identities = 5/28 (17%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 34 SIYDLHSNIHPHHHVPNGGAPELPVSST 61
++ L +++ + + AP L + +T
Sbjct: 21 ALKKLQASLKLY--ADDS-APALAIKAT 45
>2h54_A Caspase-1; allosteric site, dimer interface, hydrolase; HET: PHQ;
1.80A {Homo sapiens} PDB: 1rwm_A* 1rwk_A* 1rwo_A*
1rwp_A* 1rwv_A* 1rww_A* 1rwn_A* 2h48_A* 2h4w_A* 1rwx_A*
2hbq_A* 2hby_A* 1ibc_A 3d6m_A* 2h4y_A* 2h51_A* 3d6f_A*
3d6h_A* 2hbz_A* 2hbr_A* ...
Length = 178
Score = 28.8 bits (64), Expect = 0.53
Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 24/88 (27%)
Query: 54 PELPVSSTYAGSLGYAASYSNHIQRSLPNMSQPMSLEPPKIYPY--------HLLIITNY 105
P +P SS G++ SL + + +IYP LII N
Sbjct: 2 PAMPTSSGSEGNVK---------LCSLEEAQRIWKQKSAEIYPIMDKSSRTRLALIICNE 52
Query: 106 -------RLPPDVDRKNLERHLSDVEFE 126
R +VD + L ++ +
Sbjct: 53 EFDSIPRRTGAEVDITGMTMLLQNLGYS 80
>1yw4_A Succinylglutamate desuccinylase; alpha-beta protein, structural
genomics, PSI, protein struct initiative; 2.00A
{Chromobacterium violaceum} SCOP: c.56.5.7
Length = 341
Score = 28.5 bits (63), Expect = 0.85
Identities = 10/50 (20%), Positives = 13/50 (26%)
Query: 17 NLHPQLTLFSTFTVSNGSIYDLHSNIHPHHHVPNGGAPELPVSSTYAGSL 66
L F + YDLH+ I P L T+
Sbjct: 127 ELETLAAEFFAGARARKLHYDLHTAIRGSVFEKFAIYPFLHDGRTHKREQ 176
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA
processing, artemis, V(D)J recombination, double-strand
break repair; 2.50A {Saccharomyces cerevisiae} SCOP:
d.157.1.10
Length = 717
Score = 27.1 bits (59), Expect = 2.7
Identities = 12/67 (17%), Positives = 20/67 (29%), Gaps = 2/67 (2%)
Query: 64 GSLGYAASYSNHIQRSLPNMSQPMSLEPP--KIYPYHLLIITNYRLPPDVDRKNLERHLS 121
L YA +++ L S + P + +I T R K +
Sbjct: 172 EKLVYAKRWNHTRDNILNAASILDATGKPLSTLMRPSAIITTLDRFGSSQPFKKRSKIFK 231
Query: 122 DVEFETL 128
D + L
Sbjct: 232 DTLKKGL 238
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
0.322 0.138 0.426
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,479,580
Number of extensions: 136286
Number of successful extensions: 316
Number of sequences better than 10.0: 1
Number of HSP's gapped: 309
Number of HSP's successfully gapped: 21
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.7 bits)