RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12411
(161 letters)
>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 = 33.7 bits (76), Expect = 0.020
Identities = 18/144 (12%), Positives = 34/144 (23%), Gaps = 51/144 (35%)
Query: 53 TTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQDGL--EYSSEEEQE------ 104
TT + D + S++ L + L +Y Q+
Sbjct: 271 TTRFKQVTD-------FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 105 ---------------DLTSTAANLASKQKKELSKVDHSTIEYLP-------------FRK 136
D +T N +L+ + S++ L F
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 137 DFYVEVPEI------ARMTPEEVE 154
+P I + +V
Sbjct: 384 S--AHIPTILLSLIWFDVIKSDVM 405
Score = 30.2 bits (67), Expect = 0.28
Identities = 21/137 (15%), Positives = 40/137 (29%), Gaps = 20/137 (14%)
Query: 36 MQGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQ--- 92
Q ++++ V + A D K K I++ K+ ++ +
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILS---KEEIDHIIMSKDAVSGTLR 66
Query: 93 --DGLEYSSEEEQEDLTSTAAN-----LASKQKKELSKVDHSTIEYLPFRKDFYVEVPEI 145
L EE + L S K E + T Y+ R Y +
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 146 ARMT---PEEVEKYKEV 159
A+ + K ++
Sbjct: 127 AKYNVSRLQPYLKLRQA 143
>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 = 31.5 bits (70), Expect = 0.076
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 7/36 (19%)
Query: 117 QKKELSKVDHSTIEYLPFRKDFYVEVPEIA-RMTPE 151
+K+ L K+ S Y D P +A + T E
Sbjct: 18 EKQALKKLQASLKLYAD---D---SAPALAIKATME 47
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 29.4 bits (67), Expect = 0.51
Identities = 3/29 (10%), Positives = 6/29 (20%)
Query: 133 PFRKDFYVEVPEIARMTPEEVEKYKEVDN 161
F +FY+ +
Sbjct: 7 EFPGEFYIPPEPSNDAIEIFSSGIASGIH 35
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 29.1 bits (66), Expect = 0.66
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 56 DVKPADSGSKPAGVVIVTGV--VKKSVEKAKGELMEENQDGLE 96
D G P V+V V +K + EEN + L+
Sbjct: 301 DFVSRVGGFYPNAAVLVATVRALKYHGGANLKNIHEENLEALK 343
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 28.7 bits (65), Expect = 1.0
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 56 DVKPADSGSKPAGVVIVTGV--VKKSVEKAKGELMEENQDGLE 96
DVK +G KP VIV V +K K +L EN + L
Sbjct: 315 DVKCRYAGFKPDATVIVATVRALKMHGGVPKSDLATENLEALR 357
>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY,
membrane protein, protein channels, protein transport;
3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1
PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A
Length = 436
Score = 27.9 bits (63), Expect = 1.4
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 68 GVVIVTGVVKKSVEKAKGELMEENQDGL 95
GV++ +V + E+ E E +
Sbjct: 403 GVLLTVSIVYRMYEQLLRERTSELHPAI 430
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 28.0 bits (63), Expect = 1.5
Identities = 6/28 (21%), Positives = 14/28 (50%)
Query: 68 GVVIVTGVVKKSVEKAKGELMEENQDGL 95
G+++ G++ + E+ E + E L
Sbjct: 435 GILLTVGILYRFYEEIAREQITEMFPAL 462
>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 = 28.1 bits (62), Expect = 1.6
Identities = 31/160 (19%), Positives = 46/160 (28%), Gaps = 66/160 (41%)
Query: 37 QGVHE-----EMRKVNKPAVPTTADV-KPADSGSKPA-GVVIVTGVVKKSVEKA------ 83
QG E ++ K A DV AD+ K G I+ V+ V
Sbjct: 1624 QGSQEQGMGMDLYK-TSKAA---QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE 1679
Query: 84 KGELMEENQDGLEYSS------------------------EEEQEDLTST-----AANLA 114
KG+ + EN + + + E+ L++T A L
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 115 SK------QKKELSKVD-----HSTIEY---------LPF 134
K + K L D HS EY +
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSI 1779
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 2.1
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 8/53 (15%)
Query: 1 MKKWNLEDDS-----DEDENDNKDENGKTAEEDIDPLDAFMQGVHEEMRKVNK 48
++KW E D + E + A++D L+ + Q E++ K
Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEWREKAKKD---LEEWNQRQSEQVEKNKI 136
Score = 25.5 bits (55), Expect = 8.1
Identities = 9/49 (18%), Positives = 18/49 (36%)
Query: 81 EKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTI 129
+ + E E+ + LE ++ + E + N K + D I
Sbjct: 106 KVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADII 154
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 27.0 bits (60), Expect = 3.5
Identities = 26/166 (15%), Positives = 50/166 (30%), Gaps = 14/166 (8%)
Query: 7 EDDSDEDENDNKDENGKTAEEDIDPLDAFMQGVHEEMR--------------KVNKPAVP 52
D D+ E D + + EE + + + V E +
Sbjct: 9 NLDLDDYELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEKEIADTVWYYYFDVEK 68
Query: 53 TTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQDGLEYSSEEEQEDLTSTAAN 112
+ + S A T K+ + E + + +D L+ SS + +
Sbjct: 69 SVNYLLQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDE 128
Query: 113 LASKQKKELSKVDHSTIEYLPFRKDFYVEVPEIARMTPEEVEKYKE 158
A + E+ + S + P +K + P PE E+
Sbjct: 129 PAFQTNGEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFEQSNP 174
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
0.302 0.124 0.332
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,438,046
Number of extensions: 139851
Number of successful extensions: 264
Number of sequences better than 10.0: 1
Number of HSP's gapped: 259
Number of HSP's successfully gapped: 32
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 53 (24.3 bits)