RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780589|ref|YP_003065002.1| hypothetical protein
CLIBASIA_02380 [Candidatus Liberibacter asiaticus str. psy62]
(239 letters)
>1zat_A L,D-transpeptidase; L,D-transpeptidation, peptidoglycan,
beta-lactam insensitive transpeptidase, antibiotic
resistance, transferase; 2.40A {Enterococcus faecium}
SCOP: b.160.1.1 d.335.1.1 PDB: 2hkl_A
Length = 250
Score = 36.9 bits (85), Expect = 0.005
Identities = 12/81 (14%), Positives = 23/81 (28%), Gaps = 13/81 (16%)
Query: 101 PEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHG-------------EC 147
P G +Y+ + K + + + + IH
Sbjct: 162 PAGVFYVWNKEEDATLKGTNDDGTPYESPVNYWMPIDWTGVGIHDSDWQPEYGGDLWKTR 221
Query: 148 ASAGCYAMNNKQMQEIYAIVR 168
S GC M+E++ +V
Sbjct: 222 GSHGCINTPPSVMKELFGMVE 242
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 34.5 bits (79), Expect = 0.019
Identities = 11/49 (22%), Positives = 14/49 (28%), Gaps = 9/49 (18%)
Query: 127 PNEFDKAHNRTGADLMIHGECASAGCYAMNNKQMQEIYAIVRDSLRGNM 175
DK R G +L I C Y IV G++
Sbjct: 4 RESIDKRAGRRGPNLNIVLTCPECKVYPPK---------IVERFSEGDV 43
>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 = 30.3 bits (68), Expect = 0.36
Identities = 27/156 (17%), Positives = 50/156 (32%), Gaps = 54/156 (34%)
Query: 15 FLNGCH-HS--RSLIDKAEHPLSE-NLII-------SMQKKRTSPFHPTVIRIFK--NEN 61
+L G H+ L+ + + L + +I M K+ + +F+ E
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS--ALFRAVGEG 152
Query: 62 ILEIW-----KRNVDAEYVL-LKE-YKICAWSGTFGPKIET--------------GDEQA 100
++ + N D +Y L++ Y+ T+ + A
Sbjct: 153 NAQLVAIFGGQGNTD-DYFEELRDLYQ------TYHVLVGDLIKFSAETLSELIRTTLDA 205
Query: 101 ----PEGFYYIGWNNLN-----PNSKYFLSINIGFP 127
+G + W L P+ Y LSI I P
Sbjct: 206 EKVFTQGLNILEW--LENPSNTPDKDYLLSIPISCP 239
Score = 29.5 bits (66), Expect = 0.65
Identities = 23/133 (17%), Positives = 33/133 (24%), Gaps = 62/133 (46%)
Query: 9 LFALFIFLNGCHHSRSLIDKAEHPLSENLIISMQKK-----R----TSPFH-----PTVI 54
L+ L R KA L ++ I ++K R SPFH P
Sbjct: 386 LYGL------NLTLRKA--KAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASD 437
Query: 55 RI---FKNENILEIWK-----------------RNVDAEYV--LLKEYKICA----W--- 85
I N+ + R + ++ I W
Sbjct: 438 LINKDLVKNNV--SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC--IIRLPVKWETT 493
Query: 86 ---SGT----FGP 91
T FGP
Sbjct: 494 TQFKATHILDFGP 506
Score = 27.6 bits (61), Expect = 2.5
Identities = 42/260 (16%), Positives = 70/260 (26%), Gaps = 104/260 (40%)
Query: 9 LFALFIFLNG--CHHS-----RSLIDKAEHPLSENLIISMQKK--RTSPFHPTVIRIF-K 58
L A+F G R L H L +LI + ++F +
Sbjct: 156 LVAIF---GGQGNTDDYFEELRDLYQ-TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 59 NENILEIWKRNV----DAEYVL-------------LKEYKICAWS-----GTFGPKIE-- 94
NILE W N D +Y+L L Y + A G ++
Sbjct: 212 GLNILE-WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 95 TGDEQ----A--------PEGFYYIGWNNLNPNSKYFLSI--NIG------FPNEFDKAH 134
TG Q A E F+ + + +++ IG +P
Sbjct: 271 TGHSQGLVTAVAIAETDSWESFFV--------SVRKAITVLFFIGVRCYEAYP------- 315
Query: 135 NRTG------ADLMIHGECASAGCYAMNNKQMQEIYAIVRDSLRGNMQSHIQI--QAFPF 186
T D + + E M + + + + +Q ++ P
Sbjct: 316 -NTSLPPSILEDSLENNE-GVPSP--MLS---------ISNLTQEQVQDYVNKTNSHLP- 361
Query: 187 RMTSKNMQLY---QNNP-NY 202
Q+ N N
Sbjct: 362 ----AGKQVEISLVNGAKNL 377
>3ibt_A 1H-3-hydroxy-4-oxoquinoline 2,4-dioxygenase; QDO, oxidoreductase;
2.60A {Pseudomonas putida}
Length = 264
Score = 30.4 bits (67), Expect = 0.39
Identities = 6/74 (8%), Positives = 24/74 (32%), Gaps = 2/74 (2%)
Query: 141 LMIHGECASAGCYAMNNKQMQEIYAIVRDSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNP 200
++ G C + + + ++ RG+ F + ++++ + +
Sbjct: 25 FLLSGWCQDHRLFKNLAPLLARDFHVICPDWRGHDAKQTDSGDFDSQTLAQDLLAFIDAK 84
Query: 201 NYSFWNMLKLGHDY 214
+ M + +
Sbjct: 85 GIRDFQM--VSTSH 96
>1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA
binding protein, helix-turn-helix, phosphotransferase
system, metalloprotein; 2.70A {Escherichia coli} SCOP:
a.4.5.63 c.55.1.10 c.55.1.10 PDB: 3bp8_A
Length = 406
Score = 29.9 bits (66), Expect = 0.49
Identities = 10/115 (8%), Positives = 33/115 (28%), Gaps = 6/115 (5%)
Query: 112 LNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECASAGCYAMNNKQMQEIYAIVRDSL 171
+ + ++LS+ I F + + + E + + + I + +
Sbjct: 80 VETEAWHYLSLRISRGEIFLALRDLSSK---LVVEESQELALKDDLPLLDRIISHIDQFF 136
Query: 172 RGNMQSHIQIQAF---PFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFEKNHQEPF 223
+ + ++ + + + P Y + LG + +
Sbjct: 137 IRHQKKLERLTSIAITLPGIIDTENGIVHRMPFYEDVKEMPLGEALEQHTGVPVY 191
>2f2h_A Putative family 31 glucosidase YICI; BETA8alpha8 barrel, hydrolase;
HET: MPO XTG; 1.95A {Escherichia coli} SCOP: b.150.1.1
b.30.5.11 b.71.1.4 c.1.8.13 PDB: 1xsj_A 1xsi_A 1xsk_A*
1we5_A*
Length = 773
Score = 29.3 bits (65), Expect = 0.69
Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 8/82 (9%)
Query: 157 NKQMQEIYAIVRDSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFE 216
+ Q + RD Q++ I PF MT++ + N+P + + +
Sbjct: 173 VRNGQTVETWNRDGGTSTEQAYKNI---PFYMTNRGYGVLVNHPQCVSFEVGSEKVSKVQ 229
Query: 217 KNHQEPFIQIINKQYVFFKGQT 238
+ + ++ +Y G T
Sbjct: 230 FSVESEYL-----EYFVIDGPT 246
>1y7m_A Hypothetical protein BSU14040; surface mutagenesis, cysteine
proteases, cell WALL catabolism, structural genomics,
PSI; 2.05A {Bacillus subtilis subsp} SCOP: b.160.1.1
d.7.1.1
Length = 164
Score = 28.3 bits (62), Expect = 1.6
Identities = 20/82 (24%), Positives = 31/82 (37%), Gaps = 3/82 (3%)
Query: 87 GTFGPKIETGDEQAPEGFYYIGWNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGE 146
T+ + Q P G +YI NP + + + T I G+
Sbjct: 77 KTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHY--GIHGTNNPASI-GK 133
Query: 147 CASAGCYAMNNKQMQEIYAIVR 168
S GC M+NK + E+ +IV
Sbjct: 134 AVSKGCIRMHNKDVIELASIVP 155
>3kog_A Putative pore-forming toxin; structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-2; 1.85A {Bacteroides vulgatus atcc 8482}
Length = 256
Score = 28.1 bits (62), Expect = 1.7
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 60 ENILEIWKRNVDAEYVLLKEYKICAWS 86
+NI++ + + V + V L + ++ A S
Sbjct: 153 KNIIDAYNKGVREDKVTLNDVQVLAHS 179
>1esx_A VPR protein; helix, amphipatic, turn, viral protein; NMR
{Synthetic} SCOP: j.11.1.1 PDB: 1m8l_A 1vpc_A 1x9v_A
Length = 96
Score = 28.0 bits (63), Expect = 2.1
Identities = 11/20 (55%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 5 YNILLFALFI-FLNGCHHSR 23
IL LFI F GC HSR
Sbjct: 61 IRILQQLLFIHFRIGCRHSR 80
>2i9i_A Hypothetical protein; PSI-2 structural genomics, protein structure
initiative, NEW YORK SGX research center for structural
genomics, nysgxrc; 1.80A {Helicobacter pylori} SCOP:
c.51.6.1
Length = 254
Score = 27.6 bits (61), Expect = 2.2
Identities = 10/40 (25%), Positives = 21/40 (52%)
Query: 193 MQLYQNNPNYSFWNMLKLGHDYFEKNHQEPFIQIINKQYV 232
Y++N + + + H+Y EKN ++ +I+N+ Y
Sbjct: 171 TYTYKHNNSGGLNSSNSIIHEYLEKNKEDAIHKILNRMYA 210
>2h7g_X DNA topoisomerase 1; type IB topoisomerase, DNA binding,
protein-DNA complex, isomerase/DNA complex; HET: DNA;
1.90A {Variola virus} PDB: 2h7f_X* 1a41_A
Length = 314
Score = 26.8 bits (59), Expect = 4.3
Identities = 5/37 (13%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 45 RTSPFHPTVIRIFKNENILEIWK-RNVDAEYVLLKEY 80
+ + T++ + K++N L++ D ++ ++
Sbjct: 271 KRAYMATTILEMVKDKNFLDVVSKTTFDEFLSIVVDH 307
>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake
regulator, D-domain, dimerization domain, DB-domain,
DNA-binding domain; 2.40A {Streptomyces coelicolor}
Length = 145
Score = 26.2 bits (57), Expect = 5.9
Identities = 8/45 (17%), Positives = 18/45 (40%)
Query: 25 LIDKAEHPLSENLIISMQKKRTSPFHPTVIRIFKNENILEIWKRN 69
+D EH ++++ ++K + TV R + L +
Sbjct: 27 AVDTLEHATPDDILGEVRKTASGINISTVYRTLELLEELGLVSHA 71
>3dku_A Putative phosphohydrolase; nudix hydrolase, ORF153, YMFB,
nucleoside triphosphatase; 2.69A {Escherichia coli apec
O1}
Length = 153
Score = 26.2 bits (57), Expect = 7.5
Identities = 5/35 (14%), Positives = 16/35 (45%)
Query: 4 RYNILLFALFIFLNGCHHSRSLIDKAEHPLSENLI 38
R ++ ++ + +G + +I P ++ +I
Sbjct: 119 RSPLVAESIRCYQSGQRYPLEMIGDFNWPFTKGVI 153
>1bde_A VPR protein; AIDS, HIV, viral protein, VPR fragment, helix; NMR
{Synthetic} SCOP: j.11.1.1 PDB: 1dsj_A
Length = 33
Score = 25.7 bits (57), Expect = 8.2
Identities = 11/18 (61%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 7 ILLFALFI-FLNGCHHSR 23
IL LFI F GC HSR
Sbjct: 14 ILQQLLFIHFRIGCRHSR 31
>1r2f_A Protein (ribonucleotide reductase R2); nucleotide metabolism,
oxidoreductase; 2.10A {Salmonella typhimurium} SCOP:
a.25.1.2 PDB: 2bq1_I* 2r2f_A
Length = 319
Score = 25.8 bits (56), Expect = 9.4
Identities = 16/128 (12%), Positives = 36/128 (28%), Gaps = 7/128 (5%)
Query: 109 WNNLNPNSKYFLSINIGFPNEFDKAHNRTGADLMIHGECASAGCYAMNNKQMQEIYAIVR 168
W L+ + D N GA ++ ++N E
Sbjct: 45 WQTLSAAEQQLTIRVFTGLTLLDTIQNIAGAPSLMADAITPHEEAVLSNISFME------ 98
Query: 169 DSLRGNMQSHIQIQAFPFRMTSKNMQLYQNNPNYSFWNMLKLGHDYFEKNHQEPFIQIIN 228
++ S I + + NP + L H ++ ++ +
Sbjct: 99 -AVHARSYSSIFSTLCQTKEVDAAYAWSEENPPLQRKAQIILAHYVSDEPLKKKIASVFL 157
Query: 229 KQYVFFKG 236
+ ++F+ G
Sbjct: 158 ESFLFYSG 165
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 0.138 0.431
Gapped
Lambda K H
0.267 0.0535 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,128,598
Number of extensions: 96030
Number of successful extensions: 259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 37
Length of query: 239
Length of database: 5,693,230
Length adjustment: 90
Effective length of query: 149
Effective length of database: 3,511,270
Effective search space: 523179230
Effective search space used: 523179230
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: 55 (25.4 bits)