RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780598|ref|YP_003065011.1| outer membrane protein
[Candidatus Liberibacter asiaticus str. psy62]
(205 letters)
>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 = 58.5 bits (141), Expect = 9e-10
Identities = 26/133 (19%), Positives = 44/133 (33%), Gaps = 5/133 (3%)
Query: 75 NAGGSIFAGYNVEDSCIMYGVEGDVRYTVPVLADNIHSLHGI-GGSLRIRGGYEVSDSLL 133
N G Y E+ GV G YT + + + Y ++D
Sbjct: 19 NKMGGFNLKYRYEEDNSPLGVIGSFTYTEKSRTASSGDYNKNQYYGITAGPAYRINDWAS 78
Query: 134 LYATVGPDVAQ-KYETGKAGEITPIAIGGTAGVGVEVGGLSESLVARLEYRASKYSKVEG 192
+Y VG + + + G + G G++ E++ Y S+ V+
Sbjct: 79 IYGVVGVGYGKFQTTEYPTYKNDTSDYGFSYGAGLQF-NPMENVALDFSYEQSRIRSVD- 136
Query: 193 FYNTISLGVGMKF 205
T GVG +F
Sbjct: 137 -VGTWIAGVGYRF 148
>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 = 36.1 bits (83), Expect = 0.006
Identities = 34/188 (18%), Positives = 55/188 (29%), Gaps = 72/188 (38%)
Query: 13 LALASFCS----AQAADPVR--RAHHGGRGVVPTIATNRYVPIRHDFNGPYAGLSALYNG 66
+L A+A + R R +NR++P+ F+ L
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERK--LKF-SNRFLPVASPFHSHL--LV----- 433
Query: 67 SFGEEAHHNAGGSI---FAGYNVEDSCIMYGVEGDVRYTVPVLADNIHSLHGIGGSLRIR 123
A I NV + D++ +PV + G LR
Sbjct: 434 --------PASDLINKDLVKNNVSFN------AKDIQ--IPVY--DTFD----GSDLR-- 469
Query: 124 GGYEVSDSLLLYATVGPDVAQ-------KYETGKAGEITPIAI----GGTAGVGVEVGGL 172
+S S+ + K+ET + T I + GG +G+GV
Sbjct: 470 ---VLSGSIS------ERIVDCIIRLPVKWETTTQFKATHI-LDFGPGGASGLGV----- 514
Query: 173 SESLVARL 180
L R
Sbjct: 515 ---LTHRN 519
>2k0l_A Outer membrane protein A; OMPA, trosy, sidechain, DHPC micelles;
NMR {Klebsiella pneumoniae}
Length = 216
Score = 34.5 bits (78), Expect = 0.017
Identities = 30/154 (19%), Positives = 51/154 (33%), Gaps = 13/154 (8%)
Query: 64 YNGSFGEEAHHNAGGSIFAGYNVEDSCIMYGVEGDVRYTVPVLADNIHSLHGIGGSLRIR 123
+ + G + G F GY V + + + + G L +
Sbjct: 40 FQNNNGPTRNDQLGAGAFGGYQVNPYLGFEMGYDWLGRMAYKGSVDNGAFKAQGVQLTAK 99
Query: 124 GGYEVSDSLLLYATVGPDVAQKYE------TGKAGEITPIAIGGTAGVGVEVGGLSESLV 177
GY ++D L +Y +G V + TG + + GVE ++ +
Sbjct: 100 LGYPITDDLDIYTRLGGMVWRADSKGNYASTGVSRSEHDTGVSPVFAGGVEW-AVTRDIA 158
Query: 178 ARLEYRASKYSKVEGF------YNTISLGVGMKF 205
RLEY+ G +SLGV +F
Sbjct: 159 TRLEYQWVNNIGDAGTVGTRPDNGMLSLGVSYRF 192
>2w9x_A AXE2A, CJCE2B, putative acetyl xylan esterase; carbohydrate
esterase family 2, hydrolase; 2.00A {Cellvibrio
japonicus}
Length = 366
Score = 33.3 bits (75), Expect = 0.041
Identities = 28/171 (16%), Positives = 50/171 (29%), Gaps = 15/171 (8%)
Query: 1 MQKLFLAVGVSSLALASFCSAQAADPVRRAHHGGRGVVPTIATNRYVPIRHDFNGPYAGL 60
M+ L ++ + L+S A + H GGR +V + A ++ P
Sbjct: 1 MKPHALIGLLAGMLLSSSLYAADSTKPLPLHIGGRVLVESPANQPVSY---TYSWPAVYF 57
Query: 61 SALYNGSFGEEAHHNAGGSIFAGYNVE---DSCIMYGVEGDVRYTVPVLADNIHSLHGIG 117
+ G + + + + ++ G V Y V LA H +
Sbjct: 58 ETAFKGQSLTLKFDDDQNI----FRLIVDDKAPVVINKPGKVDYPVESLAPGKHRVR--- 110
Query: 118 GSLRIRGGYEVSDSLLLYATVGPDVAQKYETGKAGEITPIAIGGTAGVGVE 168
L + + L P + +I I T G G
Sbjct: 111 --LEKLTETQSTSGRFLGFYTDPSAKPLALPKRKRQIEFIGDSFTVGYGNT 159
>1ydy_A Glycerophosphoryl diester phosphodiesterase; structural genomics,
PSI, protein structure initiative; 1.70A {Escherichia
coli} SCOP: c.1.18.3 PDB: 1t8q_A
Length = 356
Score = 30.1 bits (66), Expect = 0.35
Identities = 11/45 (24%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 1 MQKLFLAVGVSSLALAS-FCSAQAADPVRRAHHGGRGVVP--TIA 42
++ L +A+ +S++ + S +A + + + AH G G +P T+
Sbjct: 5 LKNLSMAIMMSTIVMGSSAMAADSNEKIVIAHRGASGYLPEHTLP 49
>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 = 30.0 bits (66), Expect = 0.38
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 21/45 (46%)
Query: 119 SLRIRGGYEVSDSLLLYATVGPDVAQKYETGKAGEITP-IAIGGT 162
+L+ ++ SL LYA D A P +AI T
Sbjct: 21 ALK-----KLQASLKLYAD---DSA------------PALAIKAT 45
>3elq_A Arylsulfate sulfotransferase; beta propeller, protein-substrate
complex, periplasm, transesterification, phenol,
bacteria; 2.00A {Escherichia coli} PDB: 3ett_A* 3ets_A*
Length = 571
Score = 28.6 bits (63), Expect = 1.0
Identities = 15/116 (12%), Positives = 26/116 (22%), Gaps = 5/116 (4%)
Query: 37 VVPTIATNRYVPIRHDFNGPYAGLSALYNGSFGEEAHHNAGGSIFAGYNVEDSCIMYGVE 96
V P Y+ H F + L + +++ + E
Sbjct: 124 VAPGFEDRLYLVNTHTFTAQGSDLHWHGEKDKNAGILDAGPATGALPFDIAPFTFIVDTE 183
Query: 97 GDVR--YTVPVLADNIHSLHGIGGSLRIRGGYEVSDSLLLYATVGPDVAQKYETGK 150
G+ R D G G + A G + G+
Sbjct: 184 GEYRWWLDQDTFYDGRDRDINKRG---YLMGIRETPRGTFTAVQGQHWYEFDMMGQ 236
>1z9f_A Single-strand binding protein; TM0604, single stranded DNA-binding
protein, structural genomics, joint center for
structural genomics, JCSG; 2.30A {Thermotoga maritima}
Length = 153
Score = 28.3 bits (62), Expect = 1.1
Identities = 20/97 (20%), Positives = 30/97 (30%), Gaps = 9/97 (9%)
Query: 23 AADPVRRAHHGGRGVV-PTIATNRYVPIRHDFNGPYAGLSALYNGSFGEEAHHNAGGSIF 81
DP R G V TIA +R A + + A +
Sbjct: 26 VRDPEERYTLSGTPVTTFTIAVDRV---PRKNAPDDAQTTDFFRIVTFGRLAEFARTYLT 82
Query: 82 AGYNV--EDSCIMYGVE---GDVRYTVPVLADNIHSL 113
G V E M E G+ R + V+A+ + +
Sbjct: 83 KGRLVLVEGEMRMRRWETPTGEKRVSPEVVANVVRFM 119
>1sc6_A PGDH, D-3-phosphoglycerate dehydrogenase; allosteric regulation
phosphoglycerate dehydrogenase PGDH, oxidoreductase;
HET: NAD; 2.09A {Escherichia coli} SCOP: c.2.1.4
c.23.12.1 d.58.18.1 PDB: 1psd_A* 1yba_A* 2p9c_A* 2p9e_A*
2pa3_A* 2p9g_A*
Length = 404
Score = 28.0 bits (61), Expect = 1.6
Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 9/87 (10%)
Query: 37 VVPTIATNRYVPIRHDFNGPYAGLSALYNGSFGEEAHHNAGGSIFAGYNVEDSCIMYGVE 96
V + R + H+ N P G+ N F E G +I A Y + + Y V
Sbjct: 324 VSLPLHGGRRLMHIHE-NRP--GVLTALNKIFAE-----QGVNIAAQYLQTSAQMGY-VV 374
Query: 97 GDVRYTVPVLADNIHSLHGIGGSLRIR 123
D+ V + ++ I G++R R
Sbjct: 375 IDIEADEDVAEKALQAMKAIPGTIRAR 401
>2fxq_A Single-strand binding protein; strand beta-sheet extended loops,
DNA binding protein; 1.85A {Thermus aquaticus} PDB:
2ihe_A 2cwa_A 2ihf_A
Length = 264
Score = 27.8 bits (61), Expect = 1.8
Identities = 18/102 (17%), Positives = 32/102 (31%), Gaps = 8/102 (7%)
Query: 23 AADPVRRAHHGGRGVVP-TIATNRYVPIRHDFNGPYAGLSALYNGSFGEEAHHNAGGSIF 81
A P R GG ++ +A D +G + + G +
Sbjct: 15 TARPDMRYTPGGLAILDLNLAGQDA---FTDESGQEREVPWYHRVRLLGRQAEMWGDLLE 71
Query: 82 AGYNVEDSCIM----YGVEGDVRYTVPVLADNIHSLHGIGGS 119
G + + + +G+ + V V A+ I L G G
Sbjct: 72 KGQLIFVEGRLEYRQWEKDGEKKSEVQVRAEFIDPLEGRGRE 113
>2h88_A Succinate dehydrogenase flavoprotein subunit; complex II, membrane
protein, heme protein, iron sulfur protein,
oxidoreductase, redox enzyme; HET: FAD BHG HEM UNL;
1.74A {Gallus gallus} PDB: 1yq4_A* 1yq3_A* 2fbw_A*
2h89_A* 1zoy_A* 1zp0_A*
Length = 621
Score = 26.3 bits (57), Expect = 4.7
Identities = 11/54 (20%), Positives = 18/54 (33%)
Query: 26 PVRRAHHGGRGVVPTIATNRYVPIRHDFNGPYAGLSALYNGSFGEEAHHNAGGS 79
PV H G +PT + + + + GL A + N G+
Sbjct: 358 PVLPTVHYNMGGIPTNYKGQVITHVNGEDKVVPGLYACGEAASASVHGANRLGA 411
>1se8_A Single-strand binding protein; DNA binding protein; 1.80A
{Deinococcus radiodurans} SCOP: b.40.4.3
Length = 301
Score = 26.2 bits (57), Expect = 6.0
Identities = 19/101 (18%), Positives = 29/101 (28%), Gaps = 8/101 (7%)
Query: 24 ADPVRRAHHGGRGVVP-TIATNRYVPIRHDFNGPYAG----LSALYNGSFGEEAHHNAGG 78
DP R G V+ +IA N D G + A E G
Sbjct: 140 RDPEIRYTPAGDAVLSLSIAVNEN---YQDRQGQRQEKVHYIDATLWRDLAENMKELRKG 196
Query: 79 SIFAGYNVEDSCIMYGVEGDVRYTVPVLADNIHSLHGIGGS 119
+ +G+ R + V A + +L G+
Sbjct: 197 DPVMIMGRLVNEGWTDKDGNKRNSTRVEATRVEALARGAGN 237
>1rzu_A Glycogen synthase 1; glycosyl-transferase, GT-B fold, rossmann
fold, ADP-binding; HET: ADP; 2.30A {Agrobacterium
tumefaciens} SCOP: c.87.1.8 PDB: 1rzv_A
Length = 485
Score = 25.8 bits (55), Expect = 6.4
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 4/30 (13%)
Query: 151 AGEITPIA-IGGTAGVGVEVGGLSESLVAR 179
+ EI P+ GG A V VG L +L A
Sbjct: 7 SSEIYPLIKTGGLADV---VGALPIALEAH 33
>2p3y_A Hypothetical protein VPA0735; structural genomics, PSI-2, protein
structure initiative; 1.80A {Vibrio parahaemolyticus
rimd 2210633} SCOP: e.65.1.1
Length = 491
Score = 25.8 bits (56), Expect = 6.5
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 1 MQKLFLAVGVSSLALASFCSAQAADPVRRAHHGG---RGVVPTIAT 43
M+K LAV V+S+ L++ S A + V + G PT T
Sbjct: 1 MKKRILAVAVTSMLLSA--SVFAQETVVPSRVGDLKFESDFPTQET 44
>2qzs_A Glycogen synthase; glycosyl-transferase, GT-B fold, rossmann fold,
closed-form, ADP and glucose binding, glycogen
biosynthesis; HET: GLC ADP 250; 2.20A {Escherichia coli}
PDB: 2r4t_A* 2r4u_A* 3guh_A* 3cx4_A* 3cop_A* 3d1j_A
Length = 485
Score = 25.4 bits (54), Expect = 8.3
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 151 AGEITPIAIGGTAGVGVEVGGLSESLVAR 179
E+ P+ G G+ +G L + +A
Sbjct: 7 CSEMFPLLKTG--GLADVIGALPAAQIAD 33
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
0.318 0.138 0.403
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,724,540
Number of extensions: 76640
Number of successful extensions: 169
Number of sequences better than 10.0: 1
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 20
Length of query: 205
Length of database: 5,693,230
Length adjustment: 88
Effective length of query: 117
Effective length of database: 3,559,758
Effective search space: 416491686
Effective search space used: 416491686
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)