RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1858
(114 letters)
>3frt_A Charged multivesicular BODY protein 3; ESCRT, ESCRT-111, CHMP,
IST1, coiled coil, cytoplasm, lipoprotein, membrane,
myristate, phosphoprotein; 4.00A {Homo sapiens}
Length = 218
Score = 69.4 bits (169), Expect = 5e-16
Identities = 25/98 (25%), Positives = 59/98 (60%)
Query: 6 GRKITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKD 65
++ P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ + ++AK+
Sbjct: 3 MQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKE 62
Query: 66 LVRTRKYAKKFMMMKANIQAVSLKIQTLRSQNAMADSM 103
++R+RK K KA++ +V + ++ + +A S+
Sbjct: 63 MIRSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSL 100
>2gd5_A Charged multivesicular BODY protein 3; CHMP3, ESCRT-III, protein
transport; 2.80A {Homo sapiens} PDB: 3frv_A
Length = 179
Score = 68.2 bits (166), Expect = 9e-16
Identities = 25/96 (26%), Positives = 58/96 (60%)
Query: 8 KITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLV 67
+ P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ + ++AK+++
Sbjct: 5 EKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEMI 64
Query: 68 RTRKYAKKFMMMKANIQAVSLKIQTLRSQNAMADSM 103
R+RK K KA++ +V + ++ + +A S+
Sbjct: 65 RSRKAVSKLYASKAHMNSVLMGMKNQLAVLRVAGSL 100
>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 = 42.5 bits (99), Expect = 7e-06
Identities = 17/120 (14%), Positives = 42/120 (35%), Gaps = 23/120 (19%)
Query: 3 WL-FGRKITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKI 61
WL +PE +L Q+ L + + H + ++ S++
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-------------HSIQA 232
Query: 62 MAKDLVRTRKYAKKFMMM-----KANIQAVSLKIQTL---RSQNAMADSMIGQLETTLPI 113
+ L++++ Y +++ A +L + L R + + D + T + +
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ-VTDFLSAATTTHISL 291
Score = 31.4 bits (70), Expect = 0.058
Identities = 13/71 (18%), Positives = 30/71 (42%), Gaps = 8/71 (11%)
Query: 3 WLFGRKITPEEMLRKNQRALNKAMRDLDREKQHMEQQE---KKLIADIKKMAKEGQMESV 59
+L +KI + ++ ++ L K ++ + ++L+ I ++E
Sbjct: 502 FL-EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP--KIEEN 558
Query: 60 KIMAK--DLVR 68
I +K DL+R
Sbjct: 559 LICSKYTDLLR 569
Score = 28.7 bits (63), Expect = 0.38
Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 24/89 (26%)
Query: 4 LFGRKIT------PEEMLRKNQRALN---KAMRD----LDREKQHMEQQEKKLI------ 44
L + + P E+L N R L+ +++RD D K + +I
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 45 ---ADIKKMAKEGQM--ESVKIMAKDLVR 68
A+ +KM + S I L
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSL 394
>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 = 33.4 bits (75), Expect = 0.006
Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 23/53 (43%)
Query: 32 EKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTRKYAKKFMMMKANIQ 84
EKQ + KKL + S+K+ A D + + +KA ++
Sbjct: 18 EKQAL----KKL---------QA---SLKLYADD-------SAPALAIKATME 47
>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 = 31.9 bits (72), Expect = 0.030
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 8/43 (18%)
Query: 20 RALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIM 62
RAL+ L+ K +K+ DI ++ K +E V+
Sbjct: 1860 RALDTVTNVLNFIK------LQKI--DIIELQKSLSLEEVEGH 1894
>3lvt_A Glycosyl hydrolase, family 38; PSI, MCSG, structural genomics,
midwest center for structural genomics, protein
structure initiative; 2.55A {Enterococcus faecalis}
Length = 899
Score = 29.8 bits (66), Expect = 0.18
Identities = 8/71 (11%), Positives = 22/71 (30%), Gaps = 18/71 (25%)
Query: 1 MEWLFGRKITPEEMLRKNQRALNKAMRDLDREKQH--------------MEQQEKKLIAD 46
EW EE + ++ + ++ + + Q +
Sbjct: 19 REWYL----PYEEHHMRLIELVDNVLDLIENDPEFNSFHLDGQTIILDDYLQVRPEKKEA 74
Query: 47 IKKMAKEGQME 57
+KK + G+++
Sbjct: 75 VKKAVQAGKLK 85
>2wyh_A Alpha-mannosidase; hydrolase, glycosidase, glycoside hydrolase;
1.90A {Streptococcus pyogenes} PDB: 2wyi_A*
Length = 923
Score = 29.4 bits (65), Expect = 0.27
Identities = 5/70 (7%), Positives = 18/70 (25%), Gaps = 18/70 (25%)
Query: 2 EWLFGRKITPEEMLRKNQRALNKAMRDLDREKQH--------------MEQQEKKLIADI 47
EW E+ + ++ + + + + +I
Sbjct: 39 EWYM----AYEQHHMRLINLIDDLLEVFQTDPDFHSFHLDGQTIILDDYLKVRPEREPEI 94
Query: 48 KKMAKEGQME 57
++ G++
Sbjct: 95 RQAIASGKLR 104
>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 = 27.5 bits (61), Expect = 1.0
Identities = 20/97 (20%), Positives = 34/97 (35%), Gaps = 8/97 (8%)
Query: 15 LRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTRKYAK 74
L + A + L EK + + KK+ DI M + K + +
Sbjct: 960 LEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQ--------NNKLTKERKLLEE 1011
Query: 75 KFMMMKANIQAVSLKIQTLRSQNAMADSMIGQLETTL 111
+ + N+ K + L +SMI +LE L
Sbjct: 1012 RVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRL 1048
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 27.1 bits (59), Expect = 1.5
Identities = 15/81 (18%), Positives = 32/81 (39%)
Query: 12 EEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTRK 71
E R Q A + R ++ E+ K+L+ + K A+ +
Sbjct: 675 HEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAAR 734
Query: 72 YAKKFMMMKANIQAVSLKIQT 92
+ +++A ++A +L I+T
Sbjct: 735 IEGEGSVLQAKLKAQALAIET 755
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.9 bits (56), Expect = 3.0
Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 3/65 (4%)
Query: 12 EEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTRK 71
E +RK + K +++LD + E++ KK +E + + K+ + R
Sbjct: 84 PESIRKWREEQRKRLQELDAASK---VMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140
Query: 72 YAKKF 76
K F
Sbjct: 141 ADKAF 145
>2l2o_A UPF0727 protein C6ORF115; HSPC280, winged helix, unknown
function; NMR {Homo sapiens}
Length = 89
Score = 24.4 bits (53), Expect = 6.7
Identities = 7/42 (16%), Positives = 18/42 (42%)
Query: 35 HMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTRKYAKKF 76
+++ + L+ +I ++ + + + L R K A F
Sbjct: 2 NVDHEVNLLVEEIHRLGSKNADGKLSVKFGVLFRDDKSANLF 43
>3g7d_A PHPD; non heme Fe(II) dioxygenase, cupin, biosynthetic protein;
1.80A {Streptomyces viridochromogenes} PDB: 3gbf_A
3rzz_A
Length = 443
Score = 24.8 bits (53), Expect = 7.9
Identities = 9/47 (19%), Positives = 15/47 (31%)
Query: 1 MEWLFGRKITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADI 47
W+ RK T + L+ R L E + +A+
Sbjct: 9 AHWMNARKYTAAQTADLAGLPLDDLRRLLGDEANEPDPAAATALAEA 55
>1tt8_A Chorismate-pyruvate lyase; NEW fold, ubiquinone pathway, 123654
antiparallel sheet; HET: PHB; 1.00A {Escherichia coli}
SCOP: d.190.1.1 PDB: 1fw9_A* 2ahc_A* 1g81_A* 1xlr_A*
1jd3_A* 1g1b_A*
Length = 164
Score = 24.4 bits (53), Expect = 9.0
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 3 WLFGRKITPEEMLRKNQRAL 22
WL GR + P L + AL
Sbjct: 87 WLAGRTVVPVSTLSGPELAL 106
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
0.318 0.128 0.337
Gapped
Lambda K H
0.267 0.0598 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,628,727
Number of extensions: 86742
Number of successful extensions: 422
Number of sequences better than 10.0: 1
Number of HSP's gapped: 416
Number of HSP's successfully gapped: 68
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.7 bits)