RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3418
(119 letters)
>3kb9_A EPI-isozizaene synthase; terpenoid cyclase, alpha-helical fold,
farnesyl diphosphate, metal-binding, lyase, magnesium;
HET: BTM; 1.60A {Streptomyces coelicolor} PDB: 3kbk_A
3lgk_A 3lg5_A*
Length = 382
Score = 34.8 bits (79), Expect = 0.003
Identities = 17/130 (13%), Positives = 33/130 (25%), Gaps = 18/130 (13%)
Query: 2 ENTSGTKIPTIPTYILVRSKNASVPASCKIVIEAS--PLTPHV-----VATLPPILCTIP 54
N + +P + Y+ +R + ++ +S L V +
Sbjct: 198 HNRTRGIVPGVEEYLELRRLTFAHWIWTDLLEPSSGCELPDAVRKHPAYRRAALLSQEFA 257
Query: 55 YFTND-----KTKKFDSGRNVISILPPIPTEGLT----KDNVNDLMDRTYKAMSEEYEKI 105
+ ND K D N+ L I LT V ++
Sbjct: 258 AWYNDLCSLPKEIAGDEVHNLGISL--ITHHSLTLEEAIGEVRRRVEECITEFLAVERDA 315
Query: 106 TKENTPPGED 115
+ +
Sbjct: 316 LRFADELADG 325
>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 = 32.7 bits (74), Expect = 0.018
Identities = 30/151 (19%), Positives = 52/151 (34%), Gaps = 47/151 (31%)
Query: 1 MENTSGTKIPTIPTYIL-------------VRSKNASVPASCKIVIEASPL--TP-HVVA 44
+EN G P+ +L V N+ +PA ++ I L ++V
Sbjct: 328 LENNEGV-----PSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEI---SLVNGAKNLVV 379
Query: 45 TLPPI----LCT------IPYFTNDKTKKFDSGRN-VISI--LP---PIPTEGLTKDNVN 88
+ PP L P D+++ S R S LP P + L +
Sbjct: 380 SGPPQSLYGLNLTLRKAKAPS-GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP--AS 436
Query: 89 DLMDRTYKAMSEEYE----KITKENTPPGED 115
DL+++ + + +I +T G D
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSD 467
Score = 27.3 bits (60), Expect = 1.3
Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 14/60 (23%)
Query: 33 IEASPLTPHVVATLPPILCTIP-----YFTNDKTK-KFDSGRNVISILPPIPTEGLTKDN 86
++A P + + + + +F + + +F ILP PTEG D+
Sbjct: 1 MDAYSTRP-LTLSHGSLEHVLLVPTASFFIASQLQEQF------NKILPE-PTEGFAADD 52
>1ps1_A Pentalenene synthase; antibiotic biosynthesis, sesquiterpene
cyclase, lyase; 2.60A {Streptomyces SP} SCOP: a.128.1.4
PDB: 1hm7_A 1hm4_A
Length = 337
Score = 31.6 bits (71), Expect = 0.036
Identities = 15/132 (11%), Positives = 34/132 (25%), Gaps = 18/132 (13%)
Query: 4 TSGTKIPTIPTYILVRSKNASVPASCKIVIEAS--PLTPHVVATLPP-----ILCTIPYF 56
+ Y+ +R V + + A + V + I +
Sbjct: 158 FWNAPCDSAAQYLAMRRHTIGVQPTVDLAERAGRFEVPHRVFDSAVMSAMLQIAVDVNLL 217
Query: 57 TND-----KTKKFDSGRNVISILPPIPTEGLT----KDNVNDLMDRTYKAMSEEYEKITK 107
ND K + N++ IL G + ++ + + + + K
Sbjct: 218 LNDIASLEKEEARGEQNNMVMIL--RREHGWSKSRSVSHMQNEVRARLEQYLLLESCLPK 275
Query: 108 ENTPPGEDKKDN 119
D +
Sbjct: 276 VGEIYQLDTAER 287
>1di1_A Aristolochene synthase; sesquiterpene cyclase, isoprenoid
biosynthesis, lyase; 2.50A {Penicillium roqueforti}
SCOP: a.128.1.4 PDB: 1dgp_A
Length = 300
Score = 28.9 bits (64), Expect = 0.39
Identities = 12/126 (9%), Positives = 32/126 (25%), Gaps = 20/126 (15%)
Query: 1 MENTSGTKIPTIPTYILVRSKNASVPASCKI--VIEASPLTPHVVATLPPIL---CTIPY 55
+ + I + Y+ R K+ + L+ + + +
Sbjct: 143 QTDRARLSIHELGHYLEYREKDVGKALLSALMRFSMGLRLSADELQDMKALEANCAKQLS 202
Query: 56 FTND-------------KTKKFDSGRNVISILPPIPTEGLTKDNVNDLMDRTYKAMSEEY 102
ND K+ + + +L L ++ + +
Sbjct: 203 VVNDIYSYDKEEEASRTGHKEGAFLCSAVKVL--AEESKLGIPATKRVLWSMTREWETVH 260
Query: 103 EKITKE 108
++I E
Sbjct: 261 DEIVAE 266
>1k8k_G P16, ARP2/3 complex 16 kDa subunit, P16-ARC; beta-propeller,
structural protein; 2.00A {Bos taurus} SCOP: a.118.13.1
PDB: 1tyq_G* 1u2v_G* 2p9i_G* 2p9k_G* 2p9l_G 2p9n_G*
2p9p_G* 2p9s_G* 2p9u_G* 3rse_G 3dxm_G* 3dxk_G
Length = 151
Score = 27.9 bits (62), Expect = 0.62
Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 7/70 (10%)
Query: 42 VVATLPPILCTIPYFTNDKTKKFDSGRNVISILPPIPT-------EGLTKDNVNDLMDRT 94
+ A L L P T + K +G V+ +L + L K+ V+ LM
Sbjct: 51 MTAALQAALKNPPINTKSQAVKDRAGSIVLKVLISFKANDIEKAVQSLDKNGVDLLMKYI 110
Query: 95 YKAMSEEYEK 104
YK +
Sbjct: 111 YKGFESPSDN 120
>1zy7_A RNA-specific adenosine deaminase B1, isoform drada2A; alpha/beta
deaminase motif, zinc coordination, ionsitol
hexakisphosphate, hydrolase; HET: IHP; 1.70A {Homo
sapiens}
Length = 403
Score = 27.5 bits (60), Expect = 1.1
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 74 LPPIPTEGLTKDNVNDLMDRTYKAMSEEYEKITKENTPPG 113
PIP+EGL L D + + ++ +T + P
Sbjct: 9 RQPIPSEGLQLHLPQVLADAVSRLVLGKFGDLTDNFSSPH 48
>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 = 27.5 bits (60), Expect = 1.4
Identities = 14/92 (15%), Positives = 27/92 (29%), Gaps = 30/92 (32%)
Query: 53 IPYFTNDKTKKF------DSGRNVIS------IL-PPIPTEG--------LTKDN----- 86
+ F + F D ++++S I+ G L+K
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 87 -VNDLMDRTYKAMSEEYEKITKENTPPGEDKK 117
V +++ YK + I E P +
Sbjct: 82 FVEEVLRINYKFL---MSPIKTEQRQPSMMTR 110
>2pa5_A Tyrosine-protein phosphatase non-receptor type 9; protein tyrosine
phosphatase, MEG2, PTPN9, structural genomi structural
genomics consortium, SGC; 1.60A {Homo sapiens}
Length = 314
Score = 26.1 bits (58), Expect = 3.4
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 75 PPIPTEGLTKDNVNDLMDRTYKAMSEEYEKITKEN 109
P P ++ V+ + R + + EEYE I +EN
Sbjct: 5 VPGPHAMTIQELVDYVNARQKQGIYEEYEDIRREN 39
>2fvy_A D-galactose-binding periplasmic protein; periplasmic binding
protien, hinge, chemotaxis, transport,; HET: BGC; 0.92A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1glg_A* 2fw0_A*
2gbp_A* 2qw1_A* 2hph_A* 2ipn_A* 2ipm_A* 2ipl_A* 1gca_A*
1gcg_A 3ga5_A* 3gbp_A*
Length = 309
Score = 25.0 bits (55), Expect = 8.2
Identities = 5/18 (27%), Positives = 10/18 (55%)
Query: 76 PIPTEGLTKDNVNDLMDR 93
+P G+ KDN+ + +
Sbjct: 292 RVPYVGVDKDNLAEFSKK 309
>3cxj_A Uncharacterized protein; PSI-II, structural genomics structure
initiative; 2.80A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 165
Score = 24.6 bits (53), Expect = 8.7
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 69 NVISILPPIPTEGLTKDNVNDLMDRTYKA 97
N + I +GL+KD + + ++A
Sbjct: 105 NSYLVTDEIFFDGLSKDRLISSIKNVFRA 133
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
0.311 0.131 0.376
Gapped
Lambda K H
0.267 0.0497 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,725,565
Number of extensions: 88812
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 15
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.0 bits)