RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780225|ref|YP_003064638.1| peptidyl-tRNA hydrolase
[Candidatus Liberibacter asiaticus str. psy62]
(189 letters)
>1ryb_A CRS2; alpha-beta, hydrolase; 1.70A {Zea mays} (A:)
Length = 205
Score = 205 bits (524), Expect = 2e-54
Identities = 57/186 (30%), Positives = 98/186 (52%), Gaps = 3/186 (1%)
Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIK 60
+++AGLGNPG++Y RHN+GF +DRI + + + + G + + +++K
Sbjct: 17 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76
Query: 61 PQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISE 120
PQ++MN SG+++ + +Y++ L + L+I+DD L G LRL+ GG HNGL+++ E
Sbjct: 77 PQSYMNYSGEAIGPLAAYYQV-PLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIE 135
Query: 121 KCG--KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178
+ + RL IGIG PP +L FSS ER + ++ ++ L +
Sbjct: 136 HLDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFS 195
Query: 179 SFLNHI 184
Sbjct: 196 GSTERF 201
>2z2i_A PTH, peptidyl-tRNA hydrolase; protein synthesis; 1.98A
{Mycobacterium tuberculosis H37RV} PDB: 2z2j_A 2z2k_A
2jrc_A (A:)
Length = 191
Score = 203 bits (519), Expect = 9e-54
Identities = 73/186 (39%), Positives = 106/186 (56%), Gaps = 3/186 (1%)
Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFPAWK-KKFHAEISEGQLDGLRTILI 59
+V GLGNPG Y RHN+GF+ D + + K+ AE++ G+ G +L
Sbjct: 4 PLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSLVLA 63
Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119
KP+ +MN SG+ + + FY + N +VIHDDLDL+FG +RLK GGG+ GHNGL+S+
Sbjct: 64 KPRCYMNESGRQIGPLAKFYSVA-PANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRSVV 122
Query: 120 EKCG-KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178
G K+++R+RIGIGRPP VL NF+ ER + I + A + LL ++
Sbjct: 123 AALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQGME 182
Query: 179 SFLNHI 184
N +
Sbjct: 183 PAQNRV 188
>2pth_A Peptidyl-tRNA hydrolase; 1.20A {Escherichia coli K12} (A:)
Length = 193
Score = 200 bits (510), Expect = 1e-52
Identities = 69/192 (35%), Positives = 96/192 (50%), Gaps = 4/192 (2%)
Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHSFHFFP-AWKKKFHAEISEGQLDGLRTILI 59
+ ++ GL NPG EY RHN G +D + P + KF S L G L+
Sbjct: 2 IKLIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLREEAKFFGYTSRVTLGGEDVRLL 61
Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119
P TFMNLSG+++ + +F+++ N + LV HD+LDL G + K GGG GHNGLK I
Sbjct: 62 VPTTFMNLSGKAVAAMASFFRI-NPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 120
Query: 120 EKCG--KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKRED 177
K G N+ RLRIGIG P D ++ VLG E+ + ID AR +
Sbjct: 121 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 180
Query: 178 VSFLNHIVSVRK 189
N + + +
Sbjct: 181 TKATNRLHAFKA 192
>2cjq_A RNA-directed RNA polymerase; transferase, RNA-dependent RNA
polymerase, nucleotidyltransferase, BVDV, helicase,
membrane, protease; 2.60A {Bovine viral diarrhea virus}
PDB: 1s48_A 1s49_A* 1s4f_A
(A:128-154,A:519-598,A:664-720)
Length = 164
Score = 27.6 bits (61), Expect = 1.1
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 123 GKNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLL 172
GK+Y++L++ P ERY L PI++ + R L +L
Sbjct: 116 GKHYEQLQLQARTSP----------VTGVGTERYKLGPIVNLLLRRLRVL 155
>2vvf_A Major capsid protein P2; double jelly-roll viral capsid,
viral protein; 2.5A {Pseudoalteromonas phage PM2} PDB:
2w0c_A (A:1-139)
Length = 139
Score = 26.7 bits (59), Expect = 2.1
Identities = 5/54 (9%), Positives = 13/54 (24%), Gaps = 7/54 (12%)
Query: 56 TILIKPQTFMNL-SGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGG 108
+ + + + L+ +K + H F +K
Sbjct: 48 RVELDGRLLSTYKTLNDLILENTRHKRKIKAGVVSFH------FVRPEMKGVNV 95
>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine
ladder, asparagine ladder, virulence factor, solenoid,
cell WALL; 2.70A {Listeria monocytogenes} (A:)
Length = 457
Score = 26.1 bits (55), Expect = 2.9
Identities = 2/20 (10%), Positives = 5/20 (25%)
Query: 66 NLSGQSLLEVMNFYKLPNLE 85
L +++ N
Sbjct: 2 TLKAGQTQSFNDWFPDDNFA 21
>3g02_A Epoxide hydrolase; alpha/beta hydrolase fold,
enantioselective, mutant, directed evolution; 1.50A
{Aspergillus niger} PDB: 1qo7_A 3g0i_A*
(A:1-73,A:225-322)
Length = 171
Score = 25.2 bits (55), Expect = 5.5
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 40 KKFHAEISEGQLDGLRTIL----IKPQTFMNL 67
F I + QLD L+T++ I P T+ +L
Sbjct: 18 NPFTVSIPDEQLDDLKTLVRLSKIAPPTYESL 49
>3a3d_A PBP4, penicillin-binding protein 4; DACB, hydrolase; 1.60A
{Haemophilus influenzae} PDB: 3a3e_A* 3a3f_A* 3a3i_A*
(A:1-43,A:331-453)
Length = 166
Score = 25.3 bits (55), Expect = 5.8
Identities = 7/71 (9%), Positives = 12/71 (16%), Gaps = 16/71 (22%)
Query: 99 GTLRLKTGGGDAGHNGLKSISEKCGKNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFL 158
+ KTG +N G + N S
Sbjct: 102 KNVIAKTGSLKGVYN----------------LAGFMTNARGEKVAFVQFINGYSTGDLES 145
Query: 159 LPIIDNIARSL 169
+ +
Sbjct: 146 KTKRAPLVQFE 156
>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system;
HET: NAG; 2.50A {Mus musculus} (A:)
Length = 312
Score = 25.2 bits (53), Expect = 6.0
Identities = 8/74 (10%), Positives = 20/74 (27%)
Query: 12 HEYCENRHNIGFMCIDRIHSFHFFPAWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQS 71
++ + + +S L + L + ++LS
Sbjct: 226 ARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNR 285
Query: 72 LLEVMNFYKLPNLE 85
L + +LP +
Sbjct: 286 LDRNPSPDELPQVG 299
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.325 0.144 0.445
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,532,976
Number of extensions: 69734
Number of successful extensions: 172
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 13
Length of query: 189
Length of database: 4,956,049
Length adjustment: 84
Effective length of query: 105
Effective length of database: 2,116,429
Effective search space: 222225045
Effective search space used: 222225045
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 (21.5 bits)
S2: 52 (24.0 bits)