RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780507|ref|YP_003064920.1| hypothetical protein CLIBASIA_01970 [Candidatus Liberibacter asiaticus str. psy62] (176 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 = 40.7 bits (95), Expect = 2e-04 Identities = 38/268 (14%), Positives = 72/268 (26%), Gaps = 142/268 (52%) Query: 2 LKFLFSGIWISVVTLISF----------------------YMLFLR--SMDTMVENHVPP 37 + LF +I V ++ ML + + + V+++ Sbjct: 300 ITVLF---FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ-VQDY--- 352 Query: 38 LAIKNTN--IIKSELVSIPSVSNGVLQAYFLVKLSFIVNDSQERSYLKEIATDYLYTLLS 95 + TN + + V I S+ NG + +V S Sbjct: 353 --VNKTNSHLPAGKQVEI-SLVNG--------AKNLVV---------------------S 380 Query: 96 GPPMGDFVQIKAFGFD-NLRKKIKED--LN-SR---------LGSQF--IS--------- 131 GPP +G + LRK K L+ SR ++F ++ Sbjct: 381 GPP------QSLYGLNLTLRK-AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV 433 Query: 132 ---EVLIDELNY---------LSI-V-------DMRSNCLRLGSNASDLMTQK------- 164 +++ +L + I V D+R + D + + Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETT 493 Query: 165 -------------------GSLIEKNKE 173 G L +NK+ Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNKD 521 Score = 30.7 bits (69), Expect = 0.20 Identities = 24/139 (17%), Positives = 51/139 (36%), Gaps = 41/139 (29%) Query: 55 SVSNGVLQAYFLVKLSFIVNDSQERSYLKEIATDYLYTLLSGPPMGDFVQIKAFGFDNLR 114 ++S+G L+ LV + SQ L+E + L P + F D Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQ----LQE---QFNKIL---PEPTE-----GFAAD--- 51 Query: 115 KKIKEDLNS--RLGSQFISEVLIDELN------YLSIV-----DMRSNCLRLGSN----A 157 ++ + L +F+ V + + ++ + + L G++ A Sbjct: 52 ----DEPTTPAELVGKFLGYVS-SLVEPSKVGQFDQVLNLCLTEFENCYLE-GNDIHALA 105 Query: 158 SDLMTQKGSLIEKNKEPLK 176 + L+ + + + K KE +K Sbjct: 106 AKLLQENDTTLVKTKELIK 124 >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 = 32.3 bits (72), Expect = 0.061 Identities = 7/18 (38%), Positives = 10/18 (55%) Query: 26 SMDTMVENHVPPLAIKNT 43 S+ ++ P LAIK T Sbjct: 28 SLKLYADDSAPALAIKAT 45 >1kp8_A Groel protein; chaperonin, assisted protein folding, chaperone; HET: ATP; 2.00A {Escherichia coli} SCOP: a.129.1.1 c.8.5.1 d.56.1.1 PDB: 1gr5_A 2c7e_A* 1grl_A 1oel_A 1xck_A 1gru_A 1mnf_A 1aon_A 2c7c_A 2c7d_A 2cgt_A 2nwc_A 3e76_A* 2eu1_A 1j4z_A 1kpo_O 1sx3_A* 3c9v_A 1ss8_A 3cau_A ... Length = 547 Score = 32.1 bits (73), Expect = 0.077 Identities = 18/66 (27%), Positives = 33/66 (50%), Gaps = 2/66 (3%) Query: 83 KEIATDYLYTLLSGPPMGDF--VQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNY 140 +++ + L TL+ G +KA GF + RK + +D+ + G ISE + EL Sbjct: 251 EDVEGEALATLVVNTMRGIVKVAAVKAPGFGDRRKAMLQDIATLTGGTVISEEIGMELEK 310 Query: 141 LSIVDM 146 ++ D+ Sbjct: 311 ATLEDL 316 >1iok_A Chaperonin 60; chaperone; 3.20A {Paracoccus denitrificans} SCOP: a.129.1.1 c.8.5.1 d.56.1.1 Length = 545 Score = 29.8 bits (67), Expect = 0.33 Identities = 15/46 (32%), Positives = 24/46 (52%) Query: 103 VQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNYLSIVDMRS 148 +KA GF + RK + +D+ G Q ISE L +L ++I + Sbjct: 274 AAVKAPGFGDRRKAMLQDIAILTGGQVISEDLGMKLENVTIDMLGR 319 >1sjp_A Chaperonin60, 60 kDa chaperonin 2; chaperone, structural genomics, PSI, protein structure initiative; 3.20A {Mycobacterium tuberculosis} SCOP: a.129.1.1 c.8.5.1 d.56.1.1 Length = 504 Score = 29.8 bits (67), Expect = 0.38 Identities = 14/46 (30%), Positives = 22/46 (47%) Query: 103 VQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNYLSIVDMRS 148 V +KA GF + RK + +D+ G Q ISE + L + + Sbjct: 230 VAVKAPGFGDRRKAMLQDMAILTGGQVISEEVGLTLENADLSLLGK 275 >1we3_A CPN60(groel); chaperonin, chaperone, groel, HSP60, HSP10, folding, ADP, ATP; HET: ADP; 2.80A {Thermus thermophilus} SCOP: a.129.1.1 c.8.5.1 d.56.1.1 PDB: 1wf4_a* Length = 543 Score = 28.7 bits (64), Expect = 0.81 Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 2/66 (3%) Query: 83 KEIATDYLYTLLSGPPMGDF--VQIKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNY 140 +++ + L TL+ G +KA GF + RK++ +D+ + G ISE L +L Sbjct: 250 EDVEGEALATLVVNKLRGTLSVAAVKAPGFGDRRKEMLKDIAAVTGGTVISEELGFKLEN 309 Query: 141 LSIVDM 146 ++ + Sbjct: 310 ATLSML 315 >2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} Length = 432 Score = 26.7 bits (58), Expect = 2.7 Identities = 8/29 (27%), Positives = 15/29 (51%) Query: 110 FDNLRKKIKEDLNSRLGSQFISEVLIDEL 138 D L + + + LN + F+ + LI E+ Sbjct: 1 MDKLGENLNKALNKLKAAAFVDKKLIKEV 29 >1vgy_A Succinyl-diaminopimelate desuccinylase; structural genomics, unknown function; HET: MSE; 1.90A {Neisseria meningitidis MC58} SCOP: c.56.5.4 d.58.19.1 Length = 393 Score = 26.8 bits (58), Expect = 2.9 Identities = 7/22 (31%), Positives = 14/22 (63%), Gaps = 2/22 (9%) Query: 38 LAIKNTNIIK--SELVSIPSVS 57 +++ T ++ EL+S PSV+ Sbjct: 1 MSLTETQSLELAKELISRPSVT 22 >1kid_A Groel (HSP60 class); chaperone, cell division, ATP-binding, phosphorylation; 1.70A {Escherichia coli} SCOP: c.8.5.1 PDB: 1fya_A 1fy9_A 1la1_A 1jon_A 1dk7_A 1dkd_A Length = 203 Score = 26.6 bits (59), Expect = 3.3 Identities = 13/34 (38%), Positives = 20/34 (58%) Query: 105 IKAFGFDNLRKKIKEDLNSRLGSQFISEVLIDEL 138 +KA GF + RK + +D+ + G ISE + EL Sbjct: 103 VKAPGFGDRRKAMLQDIATLTGGTVISEEIGMEL 136 >2o18_A Thiamine biosynthesis lipoprotein APBE; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.20A {Escherichia coli} Length = 340 Score = 26.4 bits (57), Expect = 4.0 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 7/55 (12%) Query: 92 TLLSGPPMGDFVQIKAFGFD-----NLRKKIKEDLNS--RLGSQFISEVLIDELN 139 T+L G MG F + G D L++KI+ L++ +L S + + + N Sbjct: 16 TVLEGKTMGTFWRASIPGIDAKRSAELKEKIQTQLDADDQLLSTYKKDSALMRFN 70 >1dl2_A Class I alpha-1,2-mannosidase; alpha-alpha helix barrel; HET: NAG NDG BMA MAN; 1.54A {Saccharomyces cerevisiae} SCOP: a.102.2.1 PDB: 1g6i_A* Length = 511 Score = 26.2 bits (57), Expect = 4.2 Identities = 8/49 (16%), Positives = 20/49 (40%) Query: 106 KAFGFDNLRKKIKEDLNSRLGSQFISEVLIDELNYLSIVDMRSNCLRLG 154 +G+D N G+Q + +++D ++ L ++ S + Sbjct: 23 HGWGYDVYGPIEHTSHNMPRGNQPLGWIIVDSVDTLMLMYNSSTLYKSE 71 >3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus} Length = 443 Score = 25.5 bits (55), Expect = 7.1 Identities = 10/29 (34%), Positives = 13/29 (44%) Query: 110 FDNLRKKIKEDLNSRLGSQFISEVLIDEL 138 DNL K + L + + E LI EL Sbjct: 3 LDNLGKALANTLKKIARASSVDEALIKEL 31 >3ocu_A Lipoprotein E; hydrolase, outer membrane; HET: NMN; 1.35A {Haemophilus influenzae} PDB: 3ocv_A* 3ocw_A* 3ocx_A* 3ocy_A 2hlk_A 2hll_A 3et4_A 3et5_A Length = 262 Score = 25.4 bits (55), Expect = 7.4 Identities = 9/57 (15%), Positives = 18/57 (31%) Query: 74 NDSQERSYLKEIATDYLYTLLSGPPMGDFVQIKAFGFDNLRKKIKEDLNSRLGSQFI 130 ++ + + Y L G + DF + R+ + + G FI Sbjct: 158 KSAKAARFAEIEKQGYEIVLYVGDNLDDFGNTVYGKLNADRRAFVDQNQGKFGKTFI 214 >2hlk_A Outer membrane protein P4, NADP phosphatase; haloacid dehalogenase (HAD) fold, DDDD motif, class C nonspecific acid phosphatase; 1.70A {Haemophilus influenzae} PDB: 2hll_A 3et4_A 3et5_A Length = 255 Score = 25.3 bits (55), Expect = 7.7 Identities = 9/46 (19%), Positives = 14/46 (30%) Query: 85 IATDYLYTLLSGPPMGDFVQIKAFGFDNLRKKIKEDLNSRLGSQFI 130 Y L G + DF + R+ + + G FI Sbjct: 170 EKQGYEIVLYVGDNLDDFGNTVYGKLNADRRAFVDQNQGKFGKTFI 215 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 0.321 0.138 0.382 Gapped Lambda K H 0.267 0.0538 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,408,951 Number of extensions: 60817 Number of successful extensions: 208 Number of sequences better than 10.0: 1 Number of HSP's gapped: 207 Number of HSP's successfully gapped: 20 Length of query: 176 Length of database: 5,693,230 Length adjustment: 86 Effective length of query: 90 Effective length of database: 3,608,246 Effective search space: 324742140 Effective search space used: 324742140 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 (21.9 bits) S2: 53 (24.6 bits)