RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4941
(172 letters)
>3thf_A Protein shroom; coiled-coil, anti-parallel, helical, RHO-kinase,
actin-bindi protein binding, cytoskeleton regulator;
2.70A {Drosophila melanogaster}
Length = 190
Score = 125 bits (314), Expect = 7e-37
Identities = 77/168 (45%), Positives = 116/168 (69%), Gaps = 3/168 (1%)
Query: 1 MSRLDSKLTLLRSVQVDLNEESRGNDRLGEALATRLASEARPAETAKYKLHVQEVGHITS 60
+ L+ K+ L+ Q ++EE NDRLG+ L +LA + RP+E +K++ HV VG+ITS
Sbjct: 21 IKHLNQKIVSLKREQQTISEECSANDRLGQDLFAKLAEKVRPSEASKFRTHVDAVGNITS 80
Query: 61 LLLGLSGRLARAENALIGLREDHCDRKSLEEKRDKLASQLEEAKELKENIDRRSTNVATL 120
LLL LS RLA+ E++L +R +LE KRD L Q+EEA+ LK +I+RR ++A L
Sbjct: 81 LLLSLSERLAQTESSL---ETRQQERGALESKRDLLYEQMEEAQRLKSDIERRGVSIAGL 137
Query: 121 LRKYLSSEEFADYNHFINMKAKLLVDAREISDKIQLGEEQLAALQETM 168
L K LS++ ADY++FINMKAKL+ DAR+++ +I+ EEQL++L + +
Sbjct: 138 LAKNLSADMCADYDYFINMKAKLIADARDLAVRIKGSEEQLSSLSDAL 185
>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 = 41.8 bits (97), Expect = 5e-05
Identities = 30/166 (18%), Positives = 60/166 (36%), Gaps = 44/166 (26%)
Query: 24 GNDRLGEALATRLASEARPAETAKY--KLHV-QEVGHITSLLLG-LSGRLARAENALIGL 79
D+L + + L PAE K +L V HI ++LL + + +++ ++
Sbjct: 351 NCDKLTTIIESSLNVL-EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV-- 407
Query: 80 REDHCDRKSLEEKRDK------------LASQLEEAKEL-KENIDRRSTNVATLLRKYLS 126
+ + SL EK+ K L +LE L + +D + + + + S
Sbjct: 408 -VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN-----IPKTFDS 461
Query: 127 SEEFAD------YNHF------------INMKAKLLVDAREISDKI 154
+ Y+H + + + +D R + KI
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Score = 39.1 bits (90), Expect = 4e-04
Identities = 41/240 (17%), Positives = 73/240 (30%), Gaps = 75/240 (31%)
Query: 2 SRLDSKLTLLRS-----VQVDLNEESRGNDRLGEALATRLASEAR-PA-ETAKY------ 48
S L S VQ + E R N + L + + +E R P+ T Y
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRIN---YKFLMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 49 ---------KLHV---QEVGHITSLLLGL-------------SGRLARAENAL------- 76
K +V Q + LL L SG+ A +
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 77 --------IGLREDHCDRKSLEEKRD---KLASQLEEAKELKENIDRRSTNVATLLRKYL 125
+ L+ + LE + ++ + NI R ++ LR+ L
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 126 SSEEFAD-------------YNHFINMKAKLLVDAR--EISDKIQLGEEQLAALQETMEG 170
S+ + + +N F N+ K+L+ R +++D + +L
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAF-NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Score = 27.5 bits (60), Expect = 2.7
Identities = 15/89 (16%), Positives = 31/89 (34%), Gaps = 18/89 (20%)
Query: 82 DHCDRKSLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFADYNHFINMKA 141
+ + L D +N D + +V + + LS EE +H I K
Sbjct: 15 QYQYKDILSVFEDAF----------VDNFDCK--DVQDMPKSILSKEE---IDHIIMSKD 59
Query: 142 KLLVDAREISDKIQLGEEQLAALQETMEG 170
+ + + +E++ Q+ +E
Sbjct: 60 AVS-GTLRLFWTLLSKQEEMV--QKFVEE 85
>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 = 35.8 bits (82), Expect = 0.006
Identities = 28/154 (18%), Positives = 50/154 (32%), Gaps = 44/154 (28%)
Query: 36 LASEARP---AE-TAKYKLHV------QEVGHITSLLLGLSGRLARAENALIGLREDHCD 85
A++ P AE K+ +V +VG +L L EN + + H
Sbjct: 48 FAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLC---LTEFENCYLEGNDIHA- 103
Query: 86 RKSLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFADYNHFINMKAKLLV 145
LA++L + + L++ Y+++ A + L
Sbjct: 104 ----------LAAKLLQENDTTL------VKTKELIKNYITARIMAKRPFDKKSNSALFR 147
Query: 146 DAREISDKI------QLG------EEQLAALQET 167
E + ++ Q G EE L L +T
Sbjct: 148 AVGEGNAQLVAIFGGQ-GNTDDYFEE-LRDLYQT 179
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 32.6 bits (75), Expect = 0.044
Identities = 18/82 (21%), Positives = 31/82 (37%), Gaps = 8/82 (9%)
Query: 88 SLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFADYNHFINMKAKLLVDA 147
S ++ +L Q+ +E KE + V L+ +S+ D L
Sbjct: 74 STWQELRQLREQIRSLEEEKE---AVTEAVRALVVNQDNSQVQQD-----PQYQSLRARG 125
Query: 148 REISDKIQLGEEQLAALQETME 169
REI ++ L + A L+E
Sbjct: 126 REIRKQLTLLYPKEAQLEEQFY 147
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 30.8 bits (70), Expect = 0.22
Identities = 12/97 (12%), Positives = 32/97 (32%), Gaps = 13/97 (13%)
Query: 73 ENALIGLREDHCDRKSLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFAD 132
++ + E+ + S E+ R S +++ ++ +AD
Sbjct: 121 IPTIVNFSAEEISDAIREKMKKNYMSNPSYNYEIVN---RASLAAGPMVKWAIAQLNYAD 177
Query: 133 YNHFINMKAKLLVDAREISDKIQLGEEQLAALQETME 169
+L + +++Q E+ Q+ +E
Sbjct: 178 ----------MLKRVEPLRNELQKLEDDAKDNQQKLE 204
>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 = 30.6 bits (69), Expect = 0.25
Identities = 22/170 (12%), Positives = 57/170 (33%), Gaps = 7/170 (4%)
Query: 1 MSRLDSKLTLLRSVQVDLNEESRGNDRLGEALATRLASEARPAETAKYKLH--VQEVGHI 58
+ R + + +L ++ L +L +E A+ + +
Sbjct: 866 LQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQEL 925
Query: 59 TSLLLGLSGRLARAENALIGLREDHCDRKSLEEKRDKLASQLEEAKELKENIDRRSTNVA 118
+L + R+ E L+ + +K ++++ L QLEE + ++ +
Sbjct: 926 EEILHEMEARIEEEEERSQQLQAE---KKKMQQQMLDLEEQLEEEEAARQKLQLEKVTAD 982
Query: 119 TLLRKYLSSEEFAD--YNHFINMKAKLLVDAREISDKIQLGEEQLAALQE 166
++K + N + L +++ + EE+ L +
Sbjct: 983 GKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTK 1032
>3pco_A Phenylalanyl-tRNA synthetase, alpha subunit; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 327
Score = 29.0 bits (66), Expect = 0.81
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 56 GHITSLLLGLSGRLARAENALIG-----LREDHCDRKSLEEKRDKLASQLEEAKELKENI 110
GH+T + L L E G +E +++L ++ +L S A+ E I
Sbjct: 36 GHLTLQMTTL-RELPPEERPAAGAVINEAKEQV--QQALNARKAELESAALNARLAAETI 92
Query: 111 D 111
D
Sbjct: 93 D 93
>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: d.104.1.1 PDB: 1b70_A* 1eiy_A
1jjc_A* 1pys_A 2iy5_A* 3hfz_A* 3teh_A* 2aly_A* 2akw_A*
2amc_A*
Length = 350
Score = 28.7 bits (65), Expect = 0.89
Identities = 12/61 (19%), Positives = 21/61 (34%), Gaps = 8/61 (13%)
Query: 56 GHITSLLLGLSGRLARAENALIG-----LREDHCDRKSLEEKRDKLASQLEEAKELKENI 110
G +T + GL L E G ++ +LE + L + +E +
Sbjct: 30 GLLTQEMKGL-SALPLEERRKRGQELNAIKAAL--EAALEAREKALEEAALKEALERERV 86
Query: 111 D 111
D
Sbjct: 87 D 87
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 26.7 bits (60), Expect = 4.1
Identities = 15/82 (18%), Positives = 37/82 (45%), Gaps = 16/82 (19%)
Query: 88 SLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFADYNHFINMKAKLLVDA 147
L+++R ++ +LE + + N + S + L R+ + E +
Sbjct: 34 ELDKRRREIIKRLEALRS-ERN--KLSKEIGKLKREGKDTTE-------------IQNRV 77
Query: 148 REISDKIQLGEEQLAALQETME 169
+E+ ++I EE+L ++E ++
Sbjct: 78 KELKEEIDRLEEELRKVEEELK 99
>1zp7_A Recombination protein U; recombination,DNA-binding
protein,resolvase, DNA binding protein; 2.25A {Bacillus
subtilis} PDB: 1rzn_A
Length = 206
Score = 26.0 bits (57), Expect = 6.7
Identities = 6/38 (15%), Positives = 16/38 (42%)
Query: 122 RKYLSSEEFADYNHFINMKAKLLVDAREISDKIQLGEE 159
RK + +E + + I++ +D I +++
Sbjct: 164 RKSIRKDELEETAYPISLGYAPRIDYISIIEQLYFSPS 201
>1o6d_A Hypothetical UPF0247 protein TM0844; structural genomics, unknown
function; 1.66A {Thermotoga maritima} SCOP: c.116.1.3
Length = 163
Score = 25.6 bits (57), Expect = 6.7
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 90 EEKRDKLASQLE-EAKELKENIDRRSTNVATLLR-KYLSSEEFADY 133
R + + E ++L I S + R + +SSEEFAD+
Sbjct: 41 RVHRGSIEEIVRKETEDLTNRILPGSFVMVMDKRGEEVSSEEFADF 86
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 26.0 bits (58), Expect = 7.8
Identities = 12/82 (14%), Positives = 31/82 (37%), Gaps = 16/82 (19%)
Query: 88 SLEEKRDKLASQLEEAKELKENIDRRSTNVATLLRKYLSSEEFADYNHFINMKAKLLVDA 147
L+ + ++ L+ ++ + + +K E +LL +
Sbjct: 35 KLDTEWRTKLKEINR---LRHERNKIAVEIGKRRKK---GEP----------VDELLAKS 78
Query: 148 REISDKIQLGEEQLAALQETME 169
REI +I E ++ L++ ++
Sbjct: 79 REIVKRIGELENEVEELKKKID 100
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 0.128 0.330
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,422,855
Number of extensions: 140368
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 370
Number of HSP's successfully gapped: 68
Length of query: 172
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 85
Effective length of database: 4,272,666
Effective search space: 363176610
Effective search space used: 363176610
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: 54 (24.4 bits)