RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7980
(93 letters)
>3ny5_A Serine/threonine-protein kinase B-RAF; NESG, structural genomics,
PSI-biology, protein structure in northeast structural
genomics consortium; HET: MSE; 1.99A {Homo sapiens}
Length = 96
Score = 86.6 bits (214), Expect = 4e-24
Identities = 31/78 (39%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 7 PRGILLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAYDSNTGVSLQ--WD 64
+ ++R LPN+QRT V R G T+ ++L KA+ +R L PE C Y G WD
Sbjct: 11 MQKPIVRVFLPNKQRTVVPARCGVTVRDSLKKALMMRGLIPECCAVYRIQDGEKKPIGWD 70
Query: 65 TDSDHLPTTEIRVEVMEG 82
TD L E+ VEV+E
Sbjct: 71 TDISWLTGEELHVEVLEN 88
>2l05_A Serine/threonine-protein kinase B-RAF; structural genomics,
northeast structural genomics consortiu PSI-2, protein
structure initiative; NMR {Homo sapiens}
Length = 95
Score = 85.8 bits (212), Expect = 6e-24
Identities = 32/78 (41%), Positives = 43/78 (55%), Gaps = 2/78 (2%)
Query: 7 PRGILLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAYDSNTGVSLQ--WD 64
P+ ++R LPN+QRT V R G T+ ++L KA+ +R L PE C Y G WD
Sbjct: 15 PQKPIVRVFLPNKQRTVVPARCGVTVRDSLKKALMMRGLIPECCAVYRIQDGEKKPIGWD 74
Query: 65 TDSDHLPTTEIRVEVMEG 82
TD L E+ VEV+E
Sbjct: 75 TDISWLTGEELHVEVLEN 92
>1rrb_A RAF-1 RBD, RAF proto-oncogene serine/threonine-protein kinase;
RAS-binding domain, transferase, riken structural
genomics/proteomics initiative; NMR {Rattus norvegicus}
SCOP: d.15.1.5
Length = 107
Score = 85.5 bits (211), Expect = 1e-23
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 7 PRGILLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAY-----DSNTGVSL 61
+R LPN+QRT V++R G +L + L KA+K+R L+PE C + L
Sbjct: 16 KTSNTIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLQEHKGKKARL 75
Query: 62 QWDTDSDHLPTTEIRVEVME 81
W+TD+ L E++V+ ++
Sbjct: 76 DWNTDAASLIGEELQVDFLK 95
>1wxm_A A-RAF proto-oncogene serine/threonine-protein kinase; RAS-binding
domain (RBD), ubiquitin-like fold, A-RAF kinase,
structural genomics; NMR {Homo sapiens} SCOP: d.15.1.5
Length = 86
Score = 84.3 bits (208), Expect = 3e-23
Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 2/78 (2%)
Query: 7 PRGILLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAY--DSNTGVSLQWD 64
G ++ LPN+QRT V +R G ++ ++L KA+K+R L + C Y WD
Sbjct: 5 SSGGTVKVYLPNKQRTVVTVRDGMSVYDSLDKALKVRGLNQDCCVVYRLIKGRKTVTAWD 64
Query: 65 TDSDHLPTTEIRVEVMEG 82
T L E+ VEV+ G
Sbjct: 65 TAIAPLDGEELIVEVLSG 82
>1c1y_B Proto-onkogene serine/threonine protein kinase RAF-1; GTP-binding
proteins, protein-protein complex, effectors, signaling
protein; HET: GTP; 1.90A {Homo sapiens} SCOP: d.15.1.5
PDB: 1gua_B* 1rfa_A 3kud_B* 3kuc_B*
Length = 77
Score = 80.4 bits (198), Expect = 6e-22
Identities = 27/75 (36%), Positives = 43/75 (57%), Gaps = 5/75 (6%)
Query: 11 LLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAY-----DSNTGVSLQWDT 65
+R LPN+QRT V++R G +L + L KA+K+R L+PE C + L W+T
Sbjct: 3 TIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLHEHKGKKARLDWNT 62
Query: 66 DSDHLPTTEIRVEVM 80
D+ L E++V+ +
Sbjct: 63 DAASLIGEELQVDFL 77
>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 = 29.1 bits (64), Expect = 0.18
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 7/61 (11%)
Query: 19 QQRTSVHIRKGQT---LLEALSKA--MKLRNLKPEMCTAYDSNTGVSLQWDTDSDHLPTT 73
+ H T + L K + ++L E+ T + +S+ ++ D L T
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT--NPRRLSIIAESIRDGLATW 344
Query: 74 E 74
+
Sbjct: 345 D 345
Score = 25.6 bits (55), Expect = 2.8
Identities = 6/56 (10%), Positives = 20/56 (35%), Gaps = 15/56 (26%)
Query: 9 GILLRAQLPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAYDSNTGVSLQWD 64
I L ++ + ++H +++++ + +DS+ + D
Sbjct: 430 SIYLELKVKLENEYALH----RSIVDHYNIPKT-----------FDSDDLIPPYLD 470
>1zjc_A Aminopeptidase AMPS; metallopeptidase, hydrolase; 1.80A
{Staphylococcus aureus subsp} SCOP: e.60.1.1
Length = 418
Score = 27.9 bits (61), Expect = 0.45
Identities = 6/77 (7%), Positives = 19/77 (24%), Gaps = 11/77 (14%)
Query: 21 RTSVHIRKGQTLL-----------EALSKAMKLRNLKPEMCTAYDSNTGVSLQWDTDSDH 69
+ ++++ Q + + + D + +H
Sbjct: 20 KVGMNVQPKQPVFIRSSVETLELTHLIVEEAYHCGASDVRVVYSDPTLKRLKFENESVEH 79
Query: 70 LPTTEIRVEVMEGNLAL 86
EI+ +E +
Sbjct: 80 FANHEIKSYDVEARMDY 96
>1n26_A IL-6 receptor alpha chain; transmembrane, glycoprotein,
immunoglobulin domain, cytokine; HET: NAG BMA MAN NDG;
2.40A {Homo sapiens} SCOP: b.1.1.4 b.1.2.1 b.1.2.1 PDB:
1p9m_C 2arw_A
Length = 325
Score = 27.5 bits (60), Expect = 0.65
Identities = 7/40 (17%), Positives = 12/40 (30%)
Query: 50 CTAYDSNTGVSLQWDTDSDHLPTTEIRVEVMEGNLALSSL 89
C + ++ W + R M L L S+
Sbjct: 28 CPGVEPEDNATVHWVLRKPAAGSHPSRWAGMGRRLLLRSV 67
>2ec8_A MAST/stem cell growth factor receptor; glycoprotein, receptor
tyrosine kinase, growth factor cytoki dimerization,
transferase; HET: NAG; 3.00A {Homo sapiens} PDB: 2e9w_A*
Length = 524
Score = 26.9 bits (59), Expect = 0.94
Identities = 10/47 (21%), Positives = 17/47 (36%), Gaps = 3/47 (6%)
Query: 50 CTAYDSNTGVSLQWDTDSDHLPTTEIRVEVMEGNLAL---SSLLIRS 93
CT D ++ V W ++ E G+ ++L I S
Sbjct: 233 CTIKDVSSSVYSTWKRENSQTKLQEKYNSWHHGDFNYERQATLTISS 279
>1v5j_A KIAA1355 protein, RSGI RUH-008; FN3 domain, human cDNA,
structural genomics, riken structural
genomics/proteomics initiative, cell adhesion; NMR
{Homo sapiens} SCOP: b.1.2.1
Length = 108
Score = 25.3 bits (55), Expect = 2.7
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 1/38 (2%)
Query: 47 PEMCTAYDSNTGVSLQWD-TDSDHLPTTEIRVEVMEGN 83
P A + GV L WD + +E +G+
Sbjct: 11 PRGLVAVRTPRGVLLHWDPPELVPKRLDGYVLEGRQGS 48
>2gu1_A Zinc peptidase; alpha/beta, beta barrel, structural genomics,
PSI, protein structure initiative; 1.90A {Vibrio
cholerae}
Length = 361
Score = 25.3 bits (56), Expect = 3.7
Identities = 8/50 (16%), Positives = 15/50 (30%), Gaps = 10/50 (20%)
Query: 20 QRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAYDSNTGVSLQWDTDSDH 69
+ V Q +L ++L ++P G L+ D
Sbjct: 23 AQLGVPYSILQKILSVDLDHLQLDMIQP----------GEELELMMDDMG 62
>4dkd_C Macrophage colony-stimulating factor 1 receptor; dimeric four-helix
bundle cytokine, receptor tyrosine kinase glycosylation;
HET: NAG BMA; 3.00A {Homo sapiens}
Length = 292
Score = 24.9 bits (54), Expect = 4.1
Identities = 4/44 (9%), Positives = 13/44 (29%)
Query: 50 CTAYDSNTGVSLQWDTDSDHLPTTEIRVEVMEGNLALSSLLIRS 93
C+A + + ++ L + + +L +
Sbjct: 208 CSASSVDVNFDVFLQHNNTKLAIPQQSDFHNNRYQKVLTLNLDQ 251
>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic,
transport protein; 1.90A {Salmonella enterica} PDB:
3r39_A 4f3s_A
Length = 259
Score = 25.0 bits (55), Expect = 4.2
Identities = 3/18 (16%), Positives = 9/18 (50%)
Query: 26 IRKGQTLLEALSKAMKLR 43
+KG + + + +K +
Sbjct: 222 FKKGSPVRDDFNLWLKEQ 239
>2ke4_A CDC42-interacting protein 4; CIP4, TC10, coiled-coil, alternative
splicing, cell membrane, coiled coil, cytoplasm,
cytoskeleton, endocytosis; NMR {Homo sapiens}
Length = 98
Score = 24.1 bits (52), Expect = 5.2
Identities = 8/41 (19%), Positives = 16/41 (39%)
Query: 16 LPNQQRTSVHIRKGQTLLEALSKAMKLRNLKPEMCTAYDSN 56
LP +Q+ ++ + L K + R +M Y+
Sbjct: 11 LPPEQQRKRLQQQLEERSRELQKEVDQREALKKMKDVYEKT 51
>1nn8_R CD155 antigen, poliovirus receptor; icosahedral virus,
picornavirus, virus/receptor complex; 15.00A {Homo
sapiens} SCOP: i.6.1.1 PDB: 1dgi_R
Length = 302
Score = 24.7 bits (53), Expect = 6.6
Identities = 9/42 (21%), Positives = 17/42 (40%)
Query: 50 CTAYDSNTGVSLQWDTDSDHLPTTEIRVEVMEGNLALSSLLI 91
C + + W +D +P T + G + ++SL I
Sbjct: 139 CVSTGGRPPAQITWHSDLGGMPNTSQVPGFLSGTVTVTSLWI 180
>3u83_A Poliovirus receptor-related protein 1; nectin-1, hinge region
plasiticity, cell adhesion; HET: PG6; 2.50A {Homo
sapiens} PDB: 3alp_A* 3u82_B 3sku_E* 2l7j_A
Length = 331
Score = 24.3 bits (52), Expect = 7.2
Identities = 5/44 (11%), Positives = 12/44 (27%)
Query: 50 CTAYDSNTGVSLQWDTDSDHLPTTEIRVEVMEGNLALSSLLIRS 93
CT+ + + W+T + +S +
Sbjct: 157 CTSANGKPPSVVSWETRLKGEAEYQEIRNPNGTVTVISRYRLVP 200
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
0.319 0.132 0.381
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,289,538
Number of extensions: 59100
Number of successful extensions: 144
Number of sequences better than 10.0: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 18
Length of query: 93
Length of database: 6,701,793
Length adjustment: 60
Effective length of query: 33
Effective length of database: 5,026,533
Effective search space: 165875589
Effective search space used: 165875589
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 (21.8 bits)
S2: 51 (23.5 bits)