RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780740|ref|YP_003065153.1| peptidase S16 lon domain
protein [Candidatus Liberibacter asiaticus str. psy62]
(221 letters)
>3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, cytoplasm,
hydrolase, nucleotide-B protease, serine protease,
stress response; 2.60A {Bacillus subtilis}
Length = 209
Score = 122 bits (307), Expect = 6e-29
Identities = 33/198 (16%), Positives = 76/198 (38%), Gaps = 4/198 (2%)
Query: 12 EDLPCLLPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANS 71
E+L +P+ PL G+L+ P V + + + + D +I L
Sbjct: 3 EELKRSIPLLPLRGLLVYPTMVLHLDVGRDKSVQALEQAMMHDHMIFLATQQDISIDEPG 62
Query: 72 DNGLSQIGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAG 131
++ + +G +I ++ +G + V G+ R +++ + D
Sbjct: 63 EDEIFTVGTYTKIKQMLKLPNGTIRVLVEGLKRAHIVKYNEHEDYTSVDIQLIHEDDSKD 122
Query: 132 NDNDGVDRVALLEVFRNYLTVNN---LDADWESIEEASNEILVNSLAMLSPFSEEEKQAL 188
+++ + R LL+ F Y+ ++ + + + + +A P ++KQ +
Sbjct: 123 TEDEALMR-TLLDHFDQYIKISKKISAETYAAVTDIEEPGRMADIVASHLPLKLKDKQDI 181
Query: 189 LEAPDFRARAQTLIAIMK 206
LE D + R +I +
Sbjct: 182 LETADVKDRLNKVIDFIN 199
>3ljc_A ATP-dependent protease LA; LON N-domain, allosteric enzyme,
ATP-binding, DNA-binding, H nucleotide-binding, serine
protease, stress respo; 2.60A {Escherichia coli}
Length = 252
Score = 104 bits (261), Expect = 1e-23
Identities = 38/194 (19%), Positives = 79/194 (40%), Gaps = 8/194 (4%)
Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQ 77
+P+ PL +++ P V + I ++ + D+ I LV + N L
Sbjct: 18 IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 77
Query: 78 IGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAGNDNDGV 137
+G + I ++ DG + V G+ R R+ + + + + + +
Sbjct: 78 VGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESPTIDEREQEVL 137
Query: 138 DRVALLEVFRNYLTVNN-----LDADWESIEEASNEILVNSLAMLSPFSEEEKQALLEAP 192
R + F Y+ +N + SI++ + L +++A P +KQ++LE
Sbjct: 138 VR-TAISQFEGYIKLNKKIPPEVLTSLNSIDDPAR--LADTIAAHMPLKLADKQSVLEMS 194
Query: 193 DFRARAQTLIAIMK 206
D R + L+A+M+
Sbjct: 195 DVNERLEYLMAMME 208
>1zbo_A Hypothetical protein BPP1347; alpha-beta protein, structural
genomics, PSI, protein structure initiative; 2.60A
{Bordetella parapertussis 12822} SCOP: b.122.1.10
Length = 210
Score = 87.7 bits (216), Expect = 2e-18
Identities = 37/195 (18%), Positives = 61/195 (31%), Gaps = 9/195 (4%)
Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDN--GL 75
+P+FPL L P VFE RY+ M +A G+V + D L
Sbjct: 4 IPLFPL-SNALFPAGVLRLRVFEIRYLDMVRRCIADGSEFGVVVLEQGTEVRRPDGREVL 62
Query: 76 SQIGCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLAGNDND 135
++ G + RI + + G RFRL P D
Sbjct: 63 ARAGTMARIDHWEAPMPALLELACTGTGRFRLHACTQGKYGLWTGQAEPVPDDAPLEVPP 122
Query: 136 GVDRVA-----LLEVFRNYLTVNNLDADWESIEEASNEILVNSLAMLSPFSEEEKQALLE 190
+ R A L+ + ++ + + A + +K LL
Sbjct: 123 ELARSASALGRLIARLQREGVPPHIMPMAAPFRLDDCGWVADRWAEMLSLPPADKARLLL 182
Query: 191 APDFRARAQTLIAIM 205
P R + + A++
Sbjct: 183 LPP-LDRLREIDAVL 196
>2ane_A ATP-dependent protease LA; LONN119, LON protease, hydrolase; 2.03A
{Escherichia coli} SCOP: b.122.1.10
Length = 125
Score = 65.6 bits (159), Expect = 8e-12
Identities = 20/93 (21%), Positives = 38/93 (40%)
Query: 18 LPIFPLLGMLLLPGSRFSFSVFERRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQ 77
+P+ PL +++ P V + I ++ + D+ I LV + N L
Sbjct: 18 IPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEPGVNDLFT 77
Query: 78 IGCIGRITSFVETDDGHYIMTVIGVCRFRLLEE 110
+G + I ++ DG + V G+ R R+
Sbjct: 78 VGTVASILQMLKLPDGTVKVLVEGLQRARISAL 110
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 41.5 bits (97), Expect = 1e-04
Identities = 20/96 (20%), Positives = 37/96 (38%), Gaps = 19/96 (19%)
Query: 125 FISDLAGNDNDG----VDRVALLEVFRNYLTVNN-------LDADWESIEEASNEIL--- 170
++S L G V + L E YL N+ L + ++ + E++
Sbjct: 67 YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY 126
Query: 171 VNSLAML-SPFSEEEKQALLE-APDFRARAQTLIAI 204
+ + M PF ++ AL + A+ L+AI
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQ---LVAI 159
Score = 38.4 bits (89), Expect = 0.001
Identities = 51/304 (16%), Positives = 83/304 (27%), Gaps = 135/304 (44%)
Query: 9 KNREDLP---CLL--PI-FPLLGMLLL-------------PG---SRFS----------F 36
+N + P LL PI PL+G++ L PG S
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT 279
Query: 37 SVFERRYIAMFDS--------VLAGDRL--IGL----------VQPAISGFLANS-DNG- 74
+V IA DS A L IG+ + P+I L +S +N
Sbjct: 280 AVA----IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI---LEDSLENNE 332
Query: 75 ------LSQIGC-IGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQL-----NSWRCFYI 122
LS ++ +V + H L Q+ N + +
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSH-------------LPAGKQVEISLVNGAKNLVV 379
Query: 123 A-PFISDLAG-NDN-------DGVD--RVALLE---VFRN------------YLTVNNLD 156
+ P S L G N G+D R+ E F N L
Sbjct: 380 SGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV----P 434
Query: 157 ADWESIEE----ASNEILVNSLAMLSP-FSEEEKQALLEAPDFRARAQTLIAIMKIVLAR 211
A + I + + + + P + + D R + ++ +
Sbjct: 435 AS-DLINKDLVKNNVSFNAKDIQI--PVYDTFDGS------DLRVLSGSISER----IVD 481
Query: 212 AYTH 215
Sbjct: 482 CIIR 485
>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 = 34.6 bits (78), Expect = 0.017
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 7/30 (23%)
Query: 184 EKQAL--LEAP-----DFRARAQTLIAIMK 206
EKQAL L+A D A A + A M+
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>2iw5_B Protein corest, REST corepressor 1; oxidoreductase/transcription
regulator, oxidoreductase/repressor complex, histone
demethylase; HET: FAD; 2.57A {Homo sapiens} SCOP:
a.4.1.3 PDB: 2uxn_B* 2uxx_B* 2v1d_B*
Length = 235
Score = 29.0 bits (64), Expect = 0.88
Identities = 7/42 (16%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 178 SPFSEEEKQALLEAPDFRARAQTLIAIMKIVLARAYTHCENR 219
+ ++ EE+ ++A R + AI ++ ++ +N
Sbjct: 134 ARWTTEEQLLAVQA--IRKYGRDFQAISDVIGNKSVVQVKNF 173
>1tlj_A Hypothetical UPF0130 protein SSO0622; midwest center for
structural genomics, PSI, protein structure initiative,
MCSG; 2.80A {Sulfolobus solfataricus} SCOP: d.282.1.1
Length = 213
Score = 28.3 bits (63), Expect = 1.6
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 11/62 (17%)
Query: 43 YIAMFD-------SVLAGDRLIGLVQPAISGFLANSDNGLSQI----GCIGRITSFVETD 91
++ +++ + + D+ IG + P I GFL + + C GRIT
Sbjct: 2 HMLVWEELREKALNKIYHDKEIGYLDPDILGFLLAFYRNRNDVYTQSSCSGRITIVDAEM 61
Query: 92 DG 93
Sbjct: 62 PW 63
>1v5e_A Pyruvate oxidase; oxidoreductase, flavoprotein; HET: FAD; 1.60A
{Aerococcus viridans} SCOP: c.31.1.3 c.36.1.5 c.36.1.9
PDB: 2dji_A* 1v5f_A* 1v5g_A*
Length = 590
Score = 27.0 bits (58), Expect = 3.6
Identities = 17/119 (14%), Positives = 33/119 (27%), Gaps = 6/119 (5%)
Query: 79 GCIGRITSFVETDDGHYIMTVIGVCRFRLLEEAYQLNSWRCFYIAPFISDLA-GNDNDGV 137
I + E + + + + EA + I +A +
Sbjct: 468 TEYAFIKNKYEDTNKNLFGVDFTDVDYAKIAEAQGAKGFTVSRIEDMDRVMAEAVAANKA 527
Query: 138 DRVALLEVFRNY-----LTVNNLDADWESIEEASNEILVNSLAMLSPFSEEEKQALLEA 191
+++ + LD+ S +E A L PF E + LE+
Sbjct: 528 GHTVVIDCKITQDRPIPVETLKLDSKLYSEDEIKAYKERYEAANLVPFREYLEAEGLES 586
>3c5o_A UPF0311 protein RPA1785; beta-barrels, structural genomics,
PSI-2, protein structure initiative; 2.20A
{Rhodopseudomonas palustris CGA009}
Length = 157
Score = 26.0 bits (57), Expect = 6.4
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 4/56 (7%)
Query: 41 RRYIAMFDSVLAGDRLIGLVQPAISGFLANSDNGLSQIGCIGRITSFVETDDGHYI 96
RR I + + G+ + G V P + F N L ++ ETDDG +
Sbjct: 33 RRIIPILGGEVKGEGISGQVLPFGADFQIIRPNELIELEA----KYAFETDDGAVV 84
>2dvk_A UPF0130 protein APE0816; hypothetical protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 1.80A {Aeropyrum
pernix}
Length = 188
Score = 25.5 bits (56), Expect = 8.5
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 44 IAMFDSVLAGDRLIGLVQPAISGFLA--NSDNGL-SQIGCIGRITSFVETDDGH 94
+ + VL +RLIG + P LA N + + S C GRIT
Sbjct: 1 MGSIEEVLLEERLIGYLDPGAEKVLARINRPSKIVSTSSCTGRITLIEGEAHWL 54
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.325 0.141 0.417
Gapped
Lambda K H
0.267 0.0497 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,919,230
Number of extensions: 85470
Number of successful extensions: 320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 14
Length of query: 221
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 132
Effective length of database: 3,535,514
Effective search space: 466687848
Effective search space used: 466687848
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.5 bits)