RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13152
(61 letters)
>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled
coil, alanine, symmetry, axial stagger, BEND,
contractIle protein; 2.00A {Gallus gallus} SCOP:
h.1.5.1
Length = 81
Score = 32.5 bits (74), Expect = 0.001
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 10 AESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADE 51
E E+ AL ++++ E++L++ E L A KL A + A +
Sbjct: 39 LEDELVALQKKLKGTEDELDKYSESLKDAQEKLELADKKATD 80
>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle
protein; 1.80A {Gallus gallus} PDB: 3u1a_A
Length = 101
Score = 28.3 bits (63), Expect = 0.067
Identities = 9/45 (20%), Positives = 24/45 (53%)
Query: 11 ESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERD 55
E ++ L +++++ E+ ++ E L + L A + A ++E +
Sbjct: 43 EDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESE 87
Score = 24.8 bits (54), Expect = 1.7
Identities = 15/18 (83%), Positives = 18/18 (100%)
Query: 10 AESEVAALNRRIQLLEED 27
AESEVA+LNRRIQL+EE+
Sbjct: 84 AESEVASLNRRIQLVEEE 101
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP:
h.1.5.1
Length = 147
Score = 26.6 bits (58), Expect = 0.43
Identities = 27/40 (67%), Positives = 34/40 (85%)
Query: 17 LNRRIQLLEEDLERSEERLATATAKLAEASQAADESERDW 56
+NRRIQL+EE+L+R++ERLATA KL EA +AADESER
Sbjct: 1 MNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGM 40
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 25.9 bits (57), Expect = 0.67
Identities = 8/45 (17%), Positives = 18/45 (40%)
Query: 11 ESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERD 55
E + + +IQ L E +++ + +L + Q +D
Sbjct: 18 EQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTCSRPCQD 62
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.5 bits (55), Expect = 1.2
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 5/55 (9%)
Query: 2 IATLLSRHAESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERDW 56
IA E E R EE +R +E A + E + A + +W
Sbjct: 74 IAQADRLTQEPESIRKWR-----EEQRKRLQELDAASKVMEQEWREKAKKDLEEW 123
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 25.2 bits (55), Expect = 1.5
Identities = 6/46 (13%), Positives = 19/46 (41%)
Query: 10 AESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERD 55
+ E + +I+ +E+D+ E++ T + + + +
Sbjct: 974 LQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTN 1019
Score = 23.3 bits (50), Expect = 6.1
Identities = 10/47 (21%), Positives = 22/47 (46%)
Query: 8 RHAESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESER 54
+ E ++ + + L ++ + EER++ T LAE + A +
Sbjct: 986 KKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTK 1032
Score = 23.3 bits (50), Expect = 6.9
Identities = 11/48 (22%), Positives = 17/48 (35%)
Query: 6 LSRHAESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESE 53
L AE L + Q LEE L E R+ + + + +
Sbjct: 907 LYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQ 954
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 25.1 bits (55), Expect = 1.5
Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 7/52 (13%)
Query: 11 ESEVAALNRRIQLLEEDLER-------SEERLATATAKLAEASQAADESERD 55
E+++ L R+I ++ + E +T T KL + SE +
Sbjct: 927 ENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEE 978
Score = 23.9 bits (52), Expect = 3.9
Identities = 4/49 (8%), Positives = 15/49 (30%)
Query: 8 RHAESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERDW 56
+ V + LE + + + ++ + + + E +
Sbjct: 910 KIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITY 958
>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 = 25.0 bits (54), Expect = 1.7
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 3/35 (8%)
Query: 14 VAALN-RRIQLL--EEDLERSEERLATATAKLAEA 45
+ A+N R+ +E L+ ER+ T L E
Sbjct: 1809 MIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI 1843
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 24.5 bits (53), Expect = 1.9
Identities = 12/48 (25%), Positives = 27/48 (56%)
Query: 8 RHAESEVAALNRRIQLLEEDLERSEERLATATAKLAEASQAADESERD 55
+ E E L ++++ E+++E+ E + A KL +A + A ++E +
Sbjct: 40 KQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAE 87
>2ark_A Flavodoxin; FMN, structural genomics, PSI, structure initiative,
midwest center for structural genomic electron
transport; 2.40A {Aquifex aeolicus} SCOP: c.23.5.8
Length = 188
Score = 23.5 bits (51), Expect = 4.8
Identities = 9/34 (26%), Positives = 12/34 (35%), Gaps = 3/34 (8%)
Query: 25 EEDLERSE---ERLATATAKLAEASQAADESERD 55
EE+ E RLA A + + E R
Sbjct: 148 EEEKEACRRLGRRLAEWVAIFVDGRKELLEKIRK 181
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 23.3 bits (51), Expect = 6.6
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 11 ESEVAALNRRIQLLEEDLERSEERLA 36
E +R++ L ERS+ +LA
Sbjct: 799 EEWRRRQEKRLKELLALAERSQRKLA 824
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 23.3 bits (50), Expect = 6.9
Identities = 5/31 (16%), Positives = 10/31 (32%)
Query: 26 EDLERSEERLATATAKLAEASQAADESERDW 56
+ LE + L KL + + +
Sbjct: 1913 DQLEEEQLHLNIGLKKLRDTEAQVKDLQVSL 1943
>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 = 23.0 bits (50), Expect = 7.0
Identities = 8/50 (16%), Positives = 17/50 (34%), Gaps = 3/50 (6%)
Query: 6 LSRHAESEVAALNRR---IQLLEEDLERSEERLATATAKLAEASQAADES 52
+ + +N R ++ L D E E + +L+E +
Sbjct: 189 VENFLRDKKLRINPRYFALKYLSGDPEFYSEGVKLGLPELSEEERIGYRL 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
0.309 0.120 0.304
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 846,993
Number of extensions: 39023
Number of successful extensions: 269
Number of sequences better than 10.0: 1
Number of HSP's gapped: 265
Number of HSP's successfully gapped: 70
Length of query: 61
Length of database: 6,701,793
Length adjustment: 32
Effective length of query: 29
Effective length of database: 5,808,321
Effective search space: 168441309
Effective search space used: 168441309
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (23.4 bits)