RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5228
(114 letters)
>2f6i_A ATP-dependent CLP protease, putative; structural genomics,
structural genomics conso SGC, hydrolase; 2.45A
{Plasmodium falciparum} SCOP: c.14.1.1
Length = 215
Score = 228 bits (584), Expect = 2e-78
Identities = 57/114 (50%), Positives = 79/114 (69%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
+IK ++ T+ GL ASM + +LASG KGKR SLPN RIMIHQPLG A G DIEIQ
Sbjct: 92 FNYIKSDIQTISFGLVASMASVILASGKKGKRKSLPNCRIMIHQPLGNAFGHPQDIEIQT 151
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
+EILYL++ L LS T +V+ I +D+DRD +M+A A +Y +ID++++ +
Sbjct: 152 KEILYLKKLLYHYLSSFTNQTVETIEKDSDRDYYMNALEAKQYGIIDEVIETKL 205
>3qwd_A ATP-dependent CLP protease proteolytic subunit; caseinolytic
protease, serin-protease, hydrolase; 2.10A
{Staphylococcus aureus subsp} PDB: 3v5e_A 3v5i_A 3sta_V
3st9_A
Length = 203
Score = 227 bits (580), Expect = 6e-78
Identities = 72/114 (63%), Positives = 95/114 (83%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
+Q IKP+V T+CIG+AASMG+FLLA+G KGKRF+LPN+ +MIHQPLGGAQGQA++IEI A
Sbjct: 81 IQHIKPDVQTICIGMAASMGSFLLAAGAKGKRFALPNAEVMIHQPLGGAQGQATEIEIAA 140
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
IL R++LN ILSE+TG S++KI +DTDRDNF++A+ A EY LID+++
Sbjct: 141 NHILKTREKLNRILSERTGQSIEKIQKDTDRDNFLTAEEAKEYGLIDEVMVPET 194
>3p2l_A ATP-dependent CLP protease proteolytic subunit; structural
genomics, center for structural genomics of infec
diseases, csgid; 2.29A {Francisella tularensis subsp}
Length = 201
Score = 226 bits (579), Expect = 1e-77
Identities = 72/114 (63%), Positives = 92/114 (80%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
MQFIKP+VST+CIGLAASMG+ LLA G KGKR+SLP+S+IMIHQPLGG +GQASDIEI A
Sbjct: 84 MQFIKPDVSTICIGLAASMGSLLLAGGAKGKRYSLPSSQIMIHQPLGGFRGQASDIEIHA 143
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
+ IL ++ RLN++L+ TG ++ I +DTDRDNFM A A Y LID +++ R+
Sbjct: 144 KNILRIKDRLNKVLAHHTGQDLETIVKDTDRDNFMMADEAKAYGLIDHVIESRE 197
>2cby_A ATP-dependent CLP protease proteolytic subunit 1; serine protease,
endopept mycobacterium tuberculosis, ATP-dependent
protease; 2.6A {Mycobacterium tuberculosis} SCOP:
c.14.1.1 PDB: 2c8t_A 2ce3_A
Length = 208
Score = 226 bits (579), Expect = 1e-77
Identities = 49/114 (42%), Positives = 79/114 (69%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
M +++T +G+AASMG FLLA+GTKGKR++LP++RI++HQPLGG G A+DI IQA
Sbjct: 81 MVLAPCDIATYAMGMAASMGEFLLAAGTKGKRYALPHARILMHQPLGGVTGSAADIAIQA 140
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
+ +++ + + +E TG +++I D+DRD + +A A+EY +D I+ +
Sbjct: 141 EQFAVIKKEMFRLNAEFTGQPIERIEADSDRDRWFTAAEALEYGFVDHIITRAH 194
>1yg6_A ATP-dependent CLP protease proteolytic subunit; endopeptidase CLP,
caseinolytic protease, protease TI, heat shock protein
F21.5, hydrolase; 1.90A {Escherichia coli} SCOP:
c.14.1.1 PDB: 1tyf_A 2fzs_A* 3mt6_R 1yg8_A 3hln_A 2zl2_A
2zl0_A 2zl4_A 2zl3_A 3tt7_A* 3tt6_A 3ktg_A 3kth_A
3kti_A* 3ktj_A* 3ktk_A* 3q7h_A
Length = 193
Score = 226 bits (578), Expect = 1e-77
Identities = 74/113 (65%), Positives = 94/113 (83%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
MQFIKP+VST+C+G AASMGAFLL +G KGKRF LPNSR+MIHQPLGG QGQA+DIEI A
Sbjct: 80 MQFIKPDVSTICMGQAASMGAFLLTAGAKGKRFCLPNSRVMIHQPLGGYQGQATDIEIHA 139
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQR 113
REIL ++ R+NE+++ TG S+++I +DT+RD F+SA A+EY L+D IL R
Sbjct: 140 REILKVKGRMNELMALHTGQSLEQIERDTERDRFLSAPEAVEYGLVDSILTHR 192
>1y7o_A ATP-dependent CLP protease proteolytic subunit; hydrolase; 2.51A
{Streptococcus pneumoniae} SCOP: c.14.1.1
Length = 218
Score = 220 bits (564), Expect = 3e-75
Identities = 54/116 (46%), Positives = 77/116 (66%), Gaps = 2/116 (1%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQG--QASDIEI 58
M FIK +V T+ +G+AASMG + +SG KGKRF LPN+ MIHQP+GG G Q +D+ I
Sbjct: 99 MNFIKADVQTIVMGMAASMGTVIASSGAKGKRFMLPNAEYMIHQPMGGTGGGTQQTDMAI 158
Query: 59 QAREILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
+L R L +IL+E +G S++K+ D +RDN+MSA+ +EY ID+I+
Sbjct: 159 APEHLLKTRNTLEKILAENSGQSMEKVHADAERDNWMSAQETLEYGFIDEIMANNS 214
>1tg6_A Putative ATP-dependent CLP protease proteolytic S; mitochondrial
CLPP, CLP/HSP 100, ATP-dependent protease, HYD; HET:
FME; 2.10A {Homo sapiens} SCOP: c.14.1.1
Length = 277
Score = 221 bits (565), Expect = 1e-74
Identities = 58/114 (50%), Positives = 79/114 (69%)
Query: 1 MQFIKPNVSTLCIGLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQA 60
MQ+I + T C+G AASMG+ LLA+GT G R SLPNSRIMIHQP GGA+GQA+DI IQA
Sbjct: 136 MQYILNPICTWCVGQAASMGSLLLAAGTPGMRHSLPNSRIMIHQPSGGARGQATDIAIQA 195
Query: 61 REILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
EI+ L+++L I ++ T S++ I +RD +MS A E+ ++DK+L
Sbjct: 196 EEIMKLKKQLYNIYAKHTKQSLQVIESAMERDRYMSPMEAQEFGILDKVLVHPP 249
>3viv_A 441AA long hypothetical NFED protein; protein-peptide complex,
alpha / beta motif, protease, membr protein stomatin,
hydrolase-protein binding complex; 2.25A {Pyrococcus
horikoshii} PDB: 3bpp_A 2deo_A
Length = 230
Score = 78.5 bits (193), Expect = 2e-19
Identities = 21/117 (17%), Positives = 44/117 (37%), Gaps = 6/117 (5%)
Query: 1 MQFIKPNVSTLCI---GLAASMGAFLLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIE 57
+Q K V AAS G ++ P + I +P+ G S IE
Sbjct: 63 IQQSKIPVIIYVYPPGASAASAGTYIALGSHL--IAMAPGTSIGACRPILGYSQNGSIIE 120
Query: 58 IQAREILYLRQRLNEILSEKTGHSVKKISQDTDRDNFMSAKMAMEYCLIDKILKQRK 114
Y + L++++G + + +D ++ + A++Y +I+ + +
Sbjct: 121 APPAITNYFIAYIKS-LAQESGRNATIAEEFITKDLSLTPEEALKYGVIEVVARDIN 176
>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 = 32.1 bits (72), Expect = 0.032
Identities = 11/74 (14%), Positives = 21/74 (28%), Gaps = 2/74 (2%)
Query: 23 LLASGTKGKRFSLPNSRIMIHQPLGGAQGQASDIEIQAREILYLRQRLNEILSEKTGHSV 82
LL + LP + + P + S + A + + L+ S+
Sbjct: 306 LLLKYLDCRPQDLPREVLTTN-PRRLSIIAESIRDGLAT-WDNWKHVNCDKLTTIIESSL 363
Query: 83 KKISQDTDRDNFMS 96
+ R F
Sbjct: 364 NVLEPAEYRKMFDR 377
Score = 29.4 bits (65), Expect = 0.22
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 55 DIEIQAREILYLRQRLNEILSEKTGHSVKKISQDTDRDN--FMSAKMAMEY 103
I + + RL L K V+K ++ R N F+ + + E
Sbjct: 53 HIIMSKDAVSGTL-RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ 102
>1ii2_A Phosphoenolpyruvate carboxykinase; phosphate binding loop, lyase;
2.00A {Trypanosoma cruzi} SCOP: c.91.1.1 c.109.1.1
Length = 524
Score = 28.5 bits (64), Expect = 0.41
Identities = 6/25 (24%), Positives = 9/25 (36%)
Query: 25 ASGTKGKRFSLPNSRIMIHQPLGGA 49
+ KR L +R +I G
Sbjct: 420 RADRGAKRMPLRVTRAIIDAIHDGT 444
>3ku8_A GYRA14, DNA gyrase subunit A; alpha+beta, SH3 domain,
topoisomerase, toxin-isomerase compl; HET: DNA; 1.93A
{Escherichia coli} PDB: 1x75_A* 3kua_A*
Length = 156
Score = 26.1 bits (58), Expect = 2.2
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 6/26 (23%)
Query: 57 EIQAREILYLR-QRL-----NEILSE 76
E QA+ IL LR Q+L ++L E
Sbjct: 111 EQQAQAILDLRLQKLTGLEHEKLLDE 136
>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 2.40A {Homo
sapiens}
Length = 53
Score = 23.8 bits (51), Expect = 5.5
Identities = 8/37 (21%), Positives = 18/37 (48%)
Query: 42 IHQPLGGAQGQASDIEIQAREILYLRQRLNEILSEKT 78
+ LG A + +IE+ E+ ++++ I+ E
Sbjct: 7 LKHHLGAATPENPEIELLRLELAEMKEKYEAIVEENK 43
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine
kinase), PHYB1; bacteriophytochrome chromophore binding
domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Length = 327
Score = 24.9 bits (54), Expect = 7.2
Identities = 11/29 (37%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 45 PLGGAQGQASDIEIQAREILYLRQRLNEI 73
G ASDI QAR LY + I
Sbjct: 193 SYLGLHFPASDIPAQARR-LYTINPVRII 220
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain,
receptor, PAS domain, chromophore, sensory transduction;
HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A*
Length = 520
Score = 25.0 bits (54), Expect = 7.2
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 1/21 (4%)
Query: 53 ASDIEIQAREILYLRQRLNEI 73
SDI AR L++ + I
Sbjct: 205 ESDIPQPARR-LFIHNPIRVI 224
>3lpx_A GYRA, DNA gyrase, A subunit; topoisomraseii, ATP-binding,
isomerase, nucleo binding; HET: DNA; 2.60A {Colwellia
psychrerythraea} PDB: 2wl2_A* 2y3p_A* 3nuh_A* 1ab4_A
Length = 500
Score = 24.9 bits (55), Expect = 7.8
Identities = 8/33 (24%), Positives = 14/33 (42%), Gaps = 8/33 (24%)
Query: 57 EIQAREILYLR-QRLNEILSEKTGHSVKKISQD 88
QA+ I+ L+ +L +G KI +
Sbjct: 422 AEQAKAIVDLQLYKL-------SGMEHDKILSE 447
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
0.321 0.134 0.371
Gapped
Lambda K H
0.267 0.0574 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,595,931
Number of extensions: 82477
Number of successful extensions: 228
Number of sequences better than 10.0: 1
Number of HSP's gapped: 226
Number of HSP's successfully gapped: 24
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.8 bits)