RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780376|ref|YP_003064789.1| flagellar basal body P-ring
protein [Candidatus Liberibacter asiaticus str. psy62]
(369 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 = 56.1 bits (135), Expect = 1e-08
Identities = 77/522 (14%), Positives = 138/522 (26%), Gaps = 237/522 (45%)
Query: 3 FRIAFL----IFSLIG-LHEISAQVVSRIKDVVS---------------------LQSGR 36
F +L I +L L + + + + K+++ ++
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150
Query: 37 DNQLIGYGLVVGLQGTGDS----LRS-----SPFTE---QSMRSLLQNL----------- 73
+ + G QG D LR + L L
Sbjct: 151 EGNAQLV-AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 74 --GI----------STPG-GRLGSKNVAAV-------------MVTA---NLPPFASPGS 104
G+ +TP L S + +VTA +PG
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLS---IPISCPLIGVIQLAHYVVTAKLLGF----TPG- 261
Query: 105 RIDVSINSLGDASSLRG------GILVMTSLLGADG--NIYAVAQGSVVVSGLF---VKG 153
++ S L+G G++ ++ D + + + ++ V LF V+
Sbjct: 262 --EL-------RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV--LFFIGVRC 310
Query: 154 Q---------SSSFMEGISTGGKIVNG------AIVERELPKKFKDSADLILQLRN---P 195
S + + G +I L ++ + N P
Sbjct: 311 YEAYPNTSLPPSILEDSLENN----EGVPSPMLSI--SNLTQEQVQD---YVNKTNSHLP 361
Query: 196 DFSTAIRIADQINS-------------YSLNRFSRPIAEAYDSRTVKVSKPTNIDLTRL- 241
+ I+ +N Y LN R K P+ +D +R+
Sbjct: 362 A-GKQVEIS-LVNGAKNLVVSGPPQSLYGLNLTLR-----------KAKAPSGLDQSRIP 408
Query: 242 MSE----VEM--LTVETD------TPARVIINERTGTIVIGDNVRIS----KVVVSY--- 282
SE L V + PA +IN+ ++ +NV + ++ V Y
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLLVPASDLINKD----LVKNNVSFNAKDIQIPV-YDTF 463
Query: 283 ---------GN----LTVQITENEQVVQPNAFSSNGSTVTQNNTDLKVSDNKGSFSLID- 328
G+ + I V T K + ++D
Sbjct: 464 DGSDLRVLSGSISERIVDCIIR-LPVKWETT------------TQFKAT------HILDF 504
Query: 329 ----APDLNSLISGMNSIGLKTDGIISILQGIK--AAGALQS 364
A L L N DG G++ AG L
Sbjct: 505 GPGGASGLGVLTH-RN-----KDG-----TGVRVIVAGTLDI 535
Score = 39.9 bits (93), Expect = 0.001
Identities = 29/168 (17%), Positives = 46/168 (27%), Gaps = 30/168 (17%)
Query: 91 MVTANLPPFA-SPGS---RIDVSINSLGDASSLRGGILVMTSLLGA--DGNIYAVAQGSV 144
M + P S GS + V S AS L+ +L +G +
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFN---KILPEPTEGFAADDEPTTP 57
Query: 145 VVSGLFVKGQSSSFMEGISTGGKIVNGAIVERELPKKFKDSADLILQ------LRNPDFS 198
L F+ +S ++VE +F +L L L D
Sbjct: 58 A--ELV-----GKFLGYVS--------SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH 102
Query: 199 TAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPTNIDLTRLMSEVE 246
Q N +L + I +R + + L V
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG 150
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 685
Score = 32.6 bits (74), Expect = 0.15
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 133 DGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTG 165
DGN+ + + V F EG++TG
Sbjct: 451 DGNVIGIPESFDGVKEEFKDFLEKGKSEGVATG 483
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 665
Score = 32.2 bits (73), Expect = 0.20
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 133 DGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTG 165
DGN+ + + V F EG++TG
Sbjct: 451 DGNVIGIPESFDGVKEEFKDFLEKGKSEGVATG 483
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 648
Score = 30.7 bits (69), Expect = 0.49
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 9/48 (18%)
Query: 127 TSLLGA---------DGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTG 165
+LLG DGN+ + + V F EG++TG
Sbjct: 436 KNLLGPSILNEIYVYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATG 483
>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 = 0.80
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 175 ERELPKKFKDSADLILQLRNPDFSTAIRI 203
E++ KK + S L+L D + A+ I
Sbjct: 18 EKQALKKLQAS----LKLYADDSAPALAI 42
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 29.8 bits (66), Expect = 1.1
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 22/92 (23%)
Query: 276 SKVVVSYGNLTVQITENEQVVQPNAFSSNGSTVTQNNTDLKVSDNKGSFSLIDAPDLNSL 335
+KVVV+ + Q+T+ Q + + + GST+ + V N+GS D+ +L
Sbjct: 502 AKVVVTTSRFSKQVTDYYQSIYAK-YGAKGSTL------IVVPFNQGS-----KQDVEAL 549
Query: 336 ISGM------NSIGLKTDGIISIL----QGIK 357
I + +G D II QGI+
Sbjct: 550 IEFIYDTEKNGGLGWDLDAIIPFAAIPEQGIE 581
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 701
Score = 28.8 bits (64), Expect = 2.0
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 133 DGNIYAVAQGSVVVSGLFVKGQSSSFMEGISTG 165
DGN+ + + V F EG++TG
Sbjct: 451 DGNVIGIPESFDGVKEEFKDFLEKGKSEGVATG 483
>2pig_A Putative transferase; SCR6, NESG, YDCK, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; 2.38A {Salmonella paratyphi} PDB:
2f9c_A
Length = 334
Score = 28.3 bits (62), Expect = 2.9
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 7/53 (13%)
Query: 265 GTIVIGDNVRISKVVVSYGNLTV----QITENEQVVQPNAFSSNGSTVTQNNT 313
G I++ D V I G + + +I+ V AF N +
Sbjct: 261 GPILLDDRVLIEGHACIQGEILIERQVEISGRAAV---IAFDDNTIHLRGPKV 310
>1y9z_A Alkaline serine protease; subtilisin-like alpha/beta domain, insert
beta barrel domain, hydrolase; HET: PMS; 1.40A
{Pseudoalteromonas SP} PDB: 1v6c_A* 1wvm_A*
Length = 441
Score = 28.1 bits (61), Expect = 3.4
Identities = 20/165 (12%), Positives = 45/165 (27%), Gaps = 3/165 (1%)
Query: 74 GISTPGGRLGSKNVAAVMVTANLPPFASPGSRIDVSINSLGDASSLRGGILVMTSLLGAD 133
S P +VAAV + F+ ++++S S++ G + +
Sbjct: 164 SYSYPASYDSVMSVAAVDSNLDHAAFSQYTDQVEISGPGEAILSTVTVGEGRLADITIGG 223
Query: 134 GNIYAVAQGSVVVSGLFVKGQSSSFMEGISTGGKIVNGAIVERELPKKFKDSADLILQLR 193
+ ++ VV +S I+ + A+ I +
Sbjct: 224 QSYFS---NGVVPHNRLTPSGTSYAPAPINASATGALAECTVNGTSFSCGNMANKICLVE 280
Query: 194 NPDFSTAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPTNIDL 238
+ ++ I +S + P +D
Sbjct: 281 RVGNQGSSYPEINSTKACKTAGAKGIIVYSNSALPGLQNPFLVDA 325
>2du7_A O-phosphoseryl-tRNA synthetase; alpha4 tetramer, ligase, structural
genomics, NPPSFA; 3.60A {Methanocaldococcus jannaschii}
Length = 549
Score = 27.6 bits (61), Expect = 4.9
Identities = 17/67 (25%), Positives = 24/67 (35%), Gaps = 1/67 (1%)
Query: 99 FASPGSRIDVSINSLGDASSLRGGILVMTSLLGADGNIYAVAQGSVVVSGLFVKGQSSSF 158
F I V I L G V+ + DGNIY + V ++ +
Sbjct: 411 FNGERRVIKVEIFENEPNKKLLGPS-VLNEVYVYDGNIYGIPPTFEGVKEQYIPILKKAK 469
Query: 159 MEGISTG 165
EG+ST
Sbjct: 470 EEGVSTN 476
>2aq2_B SEC3, enterotoxin type C-3; T-cell receptor V beta domain,
staphlococcal enterotoxin C3, complex structure, immune
system; 1.80A {Staphylococcus aureus} SCOP: b.40.2.2
d.15.6.1 PDB: 3byy_B 3bvm_A 2aq1_B 3bzd_B 3bvz_A 3bvg_A
3byt_B 2aq3_B 1jwm_D 1i4p_A 1cqv_A 1i4q_A 1i4r_A 1i4x_A
1se2_A 1ste_A 1uns_A 2ipk_D* 1klu_D 1klg_D ...
Length = 237
Score = 27.2 bits (60), Expect = 6.7
Identities = 18/111 (16%), Positives = 34/111 (30%), Gaps = 2/111 (1%)
Query: 207 INSYSLNRFSRPIAEAYDSRTVKVSKPTNIDLTRLMSEVEMLTVETDTPARVIINERTGT 266
I+ L + + E + K K +D+ V D G
Sbjct: 53 ISDKKLKNYDKVKTELLNEDLAKKYKDEVVDVYGSNYYVNCYFSSKDNVWWPGKTCMYGG 112
Query: 267 IVIGDNVRISKVVVSYGNLTVQITENEQVVQPNAFSSNGSTVTQNNTDLKV 317
I + N+ V++ EN++ ++ +VT D+K
Sbjct: 113 ITKHEGNHFDNGN--LQNVLVRVYENKRNTISFEVQTDKKSVTAQELDIKA 161
>2dyo_A Autophagy protein 5; ubiquitin-fold, herix-bundle, protein
turnover/protein turnover complex; 1.97A {Saccharomyces
cerevisiae} PDB: 2dym_A
Length = 297
Score = 26.9 bits (59), Expect = 7.5
Identities = 13/86 (15%), Positives = 28/86 (32%), Gaps = 7/86 (8%)
Query: 183 KDSADLILQLRNPDFSTAIRIADQINSYSLNRFSRPIAEAYDSRTVKVSKPTNIDLTR-- 240
++ + +F I I+++I+S I + S T ++S+PT
Sbjct: 171 NEARKFWGSVITRNFQDFIEISNKISSSRPRHIPLIIQTSRTSGTFRISQPTISMTGVNP 230
Query: 241 -----LMSEVEMLTVETDTPARVIIN 261
+++ VI
Sbjct: 231 TLKDIEGDILDVKEGINGNDVMVICQ 256
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
0.315 0.133 0.355
Gapped
Lambda K H
0.267 0.0566 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,821,258
Number of extensions: 126635
Number of successful extensions: 415
Number of sequences better than 10.0: 1
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 28
Length of query: 369
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 275
Effective length of database: 3,414,294
Effective search space: 938930850
Effective search space used: 938930850
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 (21.6 bits)
S2: 57 (26.1 bits)