RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780572|ref|YP_003064985.1| hypothetical protein
CLIBASIA_02295 [Candidatus Liberibacter asiaticus str. psy62]
(192 letters)
>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 = 50.3 bits (120), Expect = 3e-07
Identities = 31/170 (18%), Positives = 50/170 (29%), Gaps = 73/170 (42%)
Query: 11 RSILIREGAVAIEFAILVMPYFMLVFAILEISLSFTAGQL---F--------ESAAYD-- 57
R + + G+ +E +LV P + F A QL F E A D
Sbjct: 7 RPLTLSHGS--LEHVLLV-P----------TASFFIASQLQEQFNKILPEPTEGFAADDE 53
Query: 58 -------VARKIRTGEISSK-NTHSLTEFRRVFCNDLRVLFNCSENEIGRPYDLYLDVKQ 109
V + + G +SS + +F +V L + EN YL+
Sbjct: 54 PTTPAELVGKFL--GYVSSLVEPSKVGQFDQV----LNLCLTEFENC-------YLEGND 100
Query: 110 I----KSLQEITETVPRKDKSDSSSEIDDRNFSFHPGGPSTYNVLRAYYH 155
I L + +T K K +++ Y
Sbjct: 101 IHALAAKLLQENDTTLVKTKE----------------------LIKNYIT 128
Score = 37.2 bits (86), Expect = 0.003
Identities = 26/133 (19%), Positives = 44/133 (33%), Gaps = 43/133 (32%)
Query: 30 PYFMLVFAILEISLSFTAGQLFESAA----YDVARKIRTGEISSKNTHSLTEFRR--VFC 83
F F L ++ F + L A+ D+ + ++K + + V+
Sbjct: 414 LKFSNRF--LPVASPFHS-HLLVPASDLINKDLVKNNV--SFNAK---DI----QIPVYD 461
Query: 84 ----NDLRVLFNCSENEIGRPYDLYLDVKQIKSLQEITETV--PRKDKSDSSSEIDDRNF 137
+DLR S + R + V I I V + ++ +D
Sbjct: 462 TFDGSDLR---VLSGSISER-----I-VDCI-----IRLPVKWETTTQFKATHILD---- 503
Query: 138 SFHPGGPSTYNVL 150
F PGG S VL
Sbjct: 504 -FGPGGASGLGVL 515
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human
spumaretrovirus} PDB: 3oyn_A* 3oyf_A* 3l2q_A 3l2s_A
3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A*
3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A*
3oyg_A* 3oyh_A* ...
Length = 395
Score = 32.0 bits (72), Expect = 0.089
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 2/31 (6%)
Query: 140 HPGGPSTYNVLRAYYHWP-LFTDLMRQYISS 169
H G +T + Y WP + D + + +
Sbjct: 69 HTGREATLLKIANLYWWPNMRKD-VVKQLGR 98
>3l2t_A Integrase, IN, P42IN; protein-DNA complex; HET: RLT; 2.85A {Human
spumaretrovirus} PDB: 3l2q_A 3l2s_A 3l2r_A* 3l2u_A*
3l2v_A* 3l2w_A*
Length = 395
Score = 31.4 bits (70), Expect = 0.13
Identities = 6/30 (20%), Positives = 11/30 (36%)
Query: 140 HPGGPSTYNVLRAYYHWPLFTDLMRQYISS 169
H G +T + Y WP + + +
Sbjct: 69 HTGREATLLKIANLYWWPNMRKDVVKQLGR 98
>3cmw_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 2.80A
{Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*
Length = 1706
Score = 30.6 bits (69), Expect = 0.21
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 16/73 (21%)
Query: 60 RKIRTGEISSKNTHSLTEFRRVFCNDLR----VLFNCSENEI-GRPYDLY----LDVKQI 110
RK+ G + NT + F N +R V+F E G Y LD+++I
Sbjct: 500 RKL-AGNLKQSNTLLI------FINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRI 552
Query: 111 KSLQEITETVPRK 123
+++E V +
Sbjct: 553 GAVKEGENVVGSE 565
Score = 28.3 bits (63), Expect = 1.0
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 16/73 (21%)
Query: 60 RKIRTGEISSKNTHSLTEFRRVFCNDLR----VLFNCSENEI-GRPYDLY----LDVKQI 110
RK+ G + NT + F N +R V+F E G Y LD+++I
Sbjct: 1199 RKL-AGNLKQSNTLLI------FINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRI 1251
Query: 111 KSLQEITETVPRK 123
+++E V +
Sbjct: 1252 GAVKEGENVVGSE 1264
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 28.5 bits (63), Expect = 1.1
Identities = 11/89 (12%), Positives = 29/89 (32%), Gaps = 19/89 (21%)
Query: 22 IEFAILVMPYFMLVFAILEISLSFTAGQLFESAAYDVARKIR------------------ 63
+E + Y+ + +++ + AA KIR
Sbjct: 103 LEEEMTTYAYYYTGIGAGVLIVAYIQVSFWCLAAGRQIHKIRQKFFHAIMNQEIGWFDVH 162
Query: 64 -TGEISSKNTHSLTEFRRVFCNDLRVLFN 91
GE++++ T +++ + + + F
Sbjct: 163 DVGELNTRLTDDVSKINEGIGDKIGMFFQ 191
>3kfu_E Glutamyl-tRNA(Gln) amidotransferase subunit A; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 471
Score = 25.7 bits (56), Expect = 6.8
Identities = 4/15 (26%), Positives = 10/15 (66%)
Query: 55 AYDVARKIRTGEISS 69
A+++ ++ GE+S
Sbjct: 3 AHEIRARVARGEVSP 17
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU
integrase; retroviral integrase, Zn finger; 2.69A
{Moloney murine leukemia virus}
Length = 114
Score = 25.5 bits (55), Expect = 8.3
Identities = 1/30 (3%), Positives = 7/30 (23%)
Query: 140 HPGGPSTYNVLRAYYHWPLFTDLMRQYISS 169
+ + Y+ ++ +
Sbjct: 65 FSKMKALLERSHSPYYMLNRDRTLKNITET 94
>1d2z_B Death domain of tube; six-helix bundle, linear array of death
domains, plastic interfaces, apoptosis; HET: EPE; 2.00A
{Drosophila melanogaster} SCOP: a.77.1.2
Length = 153
Score = 25.3 bits (55), Expect = 9.5
Identities = 18/83 (21%), Positives = 28/83 (33%), Gaps = 15/83 (18%)
Query: 67 ISSKNTHSLTEFRRVFCNDLRVLFNCSENEIGRPYDLYLDVKQIKSLQEITETVPRKDKS 126
+SSK + + TE RRV ND+ L LD +++ +P+
Sbjct: 1 LSSKYSRN-TELRRVEDNDIYRLAK------------ILDENS--CWRKLMSIIPKGMDV 45
Query: 127 DSSSEIDDRNFSFHPGGPSTYNV 149
+ S NF Y
Sbjct: 46 QACSGAGCLNFPAEIKKGFKYTA 68
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
0.323 0.139 0.403
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,622,601
Number of extensions: 70850
Number of successful extensions: 156
Number of sequences better than 10.0: 1
Number of HSP's gapped: 154
Number of HSP's successfully gapped: 13
Length of query: 192
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 105
Effective length of database: 3,584,002
Effective search space: 376320210
Effective search space used: 376320210
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.0 bits)