RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781078|ref|YP_003065491.1| hypothetical protein
CLIBASIA_04900 [Candidatus Liberibacter asiaticus str. psy62]
(242 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 = 42.6 bits (100), Expect = 7e-05
Identities = 37/198 (18%), Positives = 59/198 (29%), Gaps = 72/198 (36%)
Query: 10 FFVVFLSIVVPNHSLAVDLYLPRKIDLFNE--ADNNVEYQDDEYGIWSGNYVGLHISRLY 67
F FL + P HS L DL N+ NNV ++ + I +Y
Sbjct: 416 FSNRFLPVASPFHS----HLLVPASDLINKDLVKNNVS--------FNAK--DIQIP-VY 460
Query: 68 ETHPLADTINRKTYNSLLPNGLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYF 127
+T +D R S+ ++ D + +
Sbjct: 461 DTFDGSDL--RVLSGSISE-----------RIVDCIIRLPVKWETT-------------- 493
Query: 128 IYGDVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGI 187
KA + +D +G GG G V+ +N DG G V++
Sbjct: 494 ----TQFKATHILD----FGPGGASGLGVL----------THRN----KDGTGVRVIVAG 531
Query: 188 GLDYMVNYDISLSASYRY 205
L DI+ Y +
Sbjct: 532 TL------DINPDDDYGF 543
Score = 40.3 bits (94), Expect = 4e-04
Identities = 47/259 (18%), Positives = 80/259 (30%), Gaps = 98/259 (37%)
Query: 6 YGALFFVVFLSIVVPN--HSLAVDLY------LPRKIDLF---NEADNNVEYQDDEYGIW 54
+G+L ++VP +A L LP + F +E E
Sbjct: 13 HGSLEH----VLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL-------- 60
Query: 55 SGNYVGLHISRLYETHPLADTINRKTYNSLLPNGLGIELGHNIQLE-DFVFGINCHTTAA 113
G ++G ++S L E ++ +L L + E ++ G + H AA
Sbjct: 61 VGKFLG-YVSSLVEPSK------VGQFDQVLNLCLT-------EFENCYLEGNDIHALAA 106
Query: 114 K--DDSTFYRLKEKYFI--YGDVVLKAGYSV----DSLL----------IYGMGGFGG-- 153
K ++ +K K I Y + A +S L + + FGG
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI--FGGQG 164
Query: 154 --------------AY------VIDSSLEKVE--SDNSKNAKGRFDGHGSSVVLGI---- 187
Y +I S E + + +A+ F G L I
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF-TQG----LNILEWL 219
Query: 188 -------GLDYMVNYDISL 199
DY+++ IS
Sbjct: 220 ENPSNTPDKDYLLSIPISC 238
Score = 37.2 bits (86), Expect = 0.003
Identities = 39/180 (21%), Positives = 65/180 (36%), Gaps = 59/180 (32%)
Query: 22 HSLAVDLYLPRKI--DLFNEADNNVEYQDDEYGIWSGNYVGLHISRLYETHPLADTIN-- 77
+ +DLY K D++N ADN+ + D Y G I + +P+ TI+
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFK---DTY--------GFSILDIVINNPVNLTIHFG 1677
Query: 78 -------RKTYNSLLPNGLGIELGHNIQLEDFVFGINCHTTAAK---------------- 114
R+ Y++++ + + ++ E IN H+T+
Sbjct: 1678 GEKGKRIRENYSAMIFETI---VDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 115 -----DDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNS 169
+ + F LK K I D AG+S+ G Y +SL V S S
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATF-AGHSL------------GEYAALASLADVMSIES 1781
>2f1v_A Outer membrane protein W; outer membrane protein beta barrel; 2.70A
{Escherichia coli K12} PDB: 2f1t_A
Length = 197
Score = 42.6 bits (99), Expect = 9e-05
Identities = 20/157 (12%), Positives = 42/157 (26%), Gaps = 7/157 (4%)
Query: 89 LGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGY---SVDSLLI 145
LG+ + V + K + ++ Y +
Sbjct: 39 LGLTFTYMATDNIGVELLAATPFRHKIGTRATGDIATVHHLPPTLMAQWYFGDASSKFRP 98
Query: 146 YGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRY 205
Y G D+ + + D G +G+DY++N D ++ S Y
Sbjct: 99 YVGAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWG--AAGQVGVDYLINRDWLVNMSVWY 156
Query: 206 IPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242
+ I + N + + + + F
Sbjct: 157 MD--IDTTANYKLGGAQQHDSVRLDPWVFMFSAGYRF 191
>1orm_A Outer membrane protein X; OMPX, trosy, DHPC, detergents, lipids,
micelles; NMR {Escherichia coli} SCOP: f.4.1.1 PDB:
1q9f_A 1q9g_A 1qj8_A* 1qj9_A
Length = 148
Score = 42.3 bits (99), Expect = 1e-04
Identities = 20/118 (16%), Positives = 37/118 (31%), Gaps = 11/118 (9%)
Query: 90 GIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSV-DSLLIYGM 148
G L + + ++ G+ T + T Y + Y + D IYG+
Sbjct: 23 GFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPAYRINDWASIYGV 82
Query: 149 GGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYI 206
G G + ++ + D G GL + +++L SY
Sbjct: 83 VGVG----------YGKFQTTEYPTYKNDTSDYGFSYGAGLQFNPMENVALDFSYEQS 130
>2k0l_A Outer membrane protein A; OMPA, trosy, sidechain, DHPC micelles;
NMR {Klebsiella pneumoniae}
Length = 216
Score = 38.7 bits (89), Expect = 0.001
Identities = 25/155 (16%), Positives = 45/155 (29%), Gaps = 15/155 (9%)
Query: 88 GLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYG 147
G G G+ + G + + F V L A
Sbjct: 53 GAGAFGGYQVN---PYLGFEMGYDWLGRMAYKGSVDNGAFKAQGVQLTAKLGYPITDDLD 109
Query: 148 MGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207
+ G V + + + G S V G+++ V DI+ Y+++
Sbjct: 110 IYTRLGGMVWRADSKGNYASTG--VSRSEHDTGVSPVFAGGVEWAVTRDIATRLEYQWV- 166
Query: 208 HHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242
N D V + + + SLG++ F
Sbjct: 167 ---------NNIGDAGTVGTRPDNGMLSLGVSYRF 192
>2jmm_A Outer membrane protein A; NMR {Escherichia coli}
Length = 156
Score = 34.5 bits (79), Expect = 0.024
Identities = 18/112 (16%), Positives = 34/112 (30%), Gaps = 19/112 (16%)
Query: 131 DVVLKAGYSVDSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLD 190
+ K GY + G V + SD N S V G++
Sbjct: 58 QLTAKLGYPKLGTDDLDIYTRLGGMVWRADT----SDKDGNGYISAAEASVSPVFAGGVE 113
Query: 191 YMVNYDISLSASYRYIPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242
Y++ I+ + R + + + + + SLG++ F
Sbjct: 114 YVIRRRITPEIATRL---------------EYQWTNNASDNGMLSLGVSYRF 150
>1qjp_A Outer membrane protein A; HET: C8E; 1.65A {Escherichia coli} SCOP:
f.4.1.1 PDB: 1bxw_A* 1g90_A 2ge4_A
Length = 171
Score = 33.2 bits (75), Expect = 0.053
Identities = 25/155 (16%), Positives = 46/155 (29%), Gaps = 20/155 (12%)
Query: 88 GLGIELGHNIQLEDFVFGINCHTTAAKDDSTFYRLKEKYFIYGDVVLKAGYSVDSLLIYG 147
G G G+ + + K + K GY + L
Sbjct: 36 GAGAFGGYQVNPYVGFEMGYDWLGRMPYKGSVENGAYKAQGVQ-LTAKLGYPITDDLDIY 94
Query: 148 MGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207
G + +D N G+ G S V G++Y + +I+ Y++
Sbjct: 95 TRLGGMVW---------RADTYSNVYGKNHDTGVSPVFAGGVEYAITPEIATRLEYQWT- 144
Query: 208 HHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242
N D + + + + SLG++ F
Sbjct: 145 ---------NNIGDAHTIGTRPDNGMLSLGVSYRF 170
>2pbi_A Regulator of G-protein signaling 9; helix WRAP, RGS domain, DEP
domain, DHEX domain, GGL domain, beta propeller,
signaling protein; 1.95A {Mus musculus}
Length = 424
Score = 31.3 bits (71), Expect = 0.19
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 90 GIELGHNIQLEDFVFGI-NCHTTAAKDDSTFYRLKEKYF 127
LG+ I +++ + + K DS+ YR + YF
Sbjct: 72 AQNLGNFIVKYGYIYPLQDPKNLILKPDSSLYRFQTPYF 110
>3dwo_X Probable outer membrane protein; beta barrel; HET: C8E; 2.20A
{Pseudomonas aeruginosa}
Length = 451
Score = 30.0 bits (66), Expect = 0.47
Identities = 11/61 (18%), Positives = 19/61 (31%), Gaps = 3/61 (4%)
Query: 185 LGIGLDYMVNYDISLSASYRYIPH---HIHSVNNSNAKSDVERVDRKGNAHIASLGINMH 241
LG G + ++S+ A+Y + +VN + SL
Sbjct: 383 LGAGYRFQSMPELSIDAAYSRQFVKEVPLKTVNQDRLGGGRLDGRATSKGQVFSLSATYD 442
Query: 242 F 242
F
Sbjct: 443 F 443
>3h8d_A Myosin-VI; myosin VI, myosin 6, DAB2, cargo binding,
protein-peptide complex, actin-binding, ATP-binding,
calmodulin-binding; 2.20A {Mus musculus} PDB: 2kia_A
Length = 141
Score = 26.9 bits (59), Expect = 3.9
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 33 KIDLFNEADNNVEYQDDEYGIWSGNYVGLHISRLYETHP 71
+I AD + Q+ + G W ++ G I+R E HP
Sbjct: 18 RIPFIRPADQYKDPQNKKKGWWYAHFDGPWIARQMELHP 56
>1p4t_A Outer membrane protein NSPA; beta barrel; HET: CXE; 2.55A
{Neisseria meningitidis} SCOP: f.4.1.1
Length = 155
Score = 26.9 bits (59), Expect = 4.2
Identities = 15/102 (14%), Positives = 27/102 (26%), Gaps = 22/102 (21%)
Query: 141 DSLLIYGMGGFGGAYVIDSSLEKVESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLS 200
+ Y F + + G+ Y V ++ L
Sbjct: 76 SPVKPYLGARLSLNRA----------SVDLGGSDSFSQTSIGLGVLTGVSYAVTPNVDLD 125
Query: 201 ASYRYIPHHIHSVNNSNAKSDVERVDRKGNAHIASLGINMHF 242
A YRY + + N +V + S G+ + F
Sbjct: 126 AGYRY-----NYIGKVNTVKNV-------RSGELSAGVRVKF 155
>1cb8_A Protein (chondroitinase AC); lyase, chondroitin degradation; HET:
MAN RAM GCU MFU; 1.90A {Flavobacterium heparinum} SCOP:
a.102.3.2 b.24.1.1 b.30.5.2 PDB: 1hm2_A* 1hm3_A* 1hmu_A*
1hmw_A*
Length = 678
Score = 26.1 bits (57), Expect = 6.6
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 165 ESDNSKNAKGRFDGHGSSVVLGIGLDYMVNYDISLSASYRYIP 207
ES N +N GR+ G++ + G +Y Y+I + IP
Sbjct: 349 ESGNKENLLGRYLSDGATNIQLRGPEY---YNIMPVWEWDKIP 388
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
0.320 0.140 0.414
Gapped
Lambda K H
0.267 0.0611 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,121,390
Number of extensions: 94141
Number of successful extensions: 256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 248
Number of HSP's successfully gapped: 28
Length of query: 242
Length of database: 5,693,230
Length adjustment: 90
Effective length of query: 152
Effective length of database: 3,511,270
Effective search space: 533713040
Effective search space used: 533713040
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 (21.7 bits)
S2: 55 (25.2 bits)