RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780932|ref|YP_003065345.1| hypothetical protein
CLIBASIA_04155 [Candidatus Liberibacter asiaticus str. psy62]
(236 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 = 43.0 bits (101), Expect = 6e-05
Identities = 36/163 (22%), Positives = 54/163 (33%), Gaps = 59/163 (36%)
Query: 114 SILPST--DALEENAVMDKPLNEGLSPS-----SDLGMQAEESMYSPDLVDKCKG---EE 163
S+ PS D+LE N EG PS S+L + + D V+K
Sbjct: 318 SLPPSILEDSLENN--------EG-VPSPMLSISNLTQEQVQ-----DYVNKTNSHLPAG 363
Query: 164 E----ALVSSDVGDQ--VA---SSFDQLVKALRESE-SRSLDQ----LS----------L 199
+ +LV+ V+ S L LR+++ LDQ S L
Sbjct: 364 KQVEISLVNGA--KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
Query: 200 DVLRPMLREWLDDNLPGIVERLVREEIE------RIARGPIRH 236
V P L I + LV+ + +I P+
Sbjct: 422 PVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI---PVYD 461
Score = 41.9 bits (98), Expect = 1e-04
Identities = 37/228 (16%), Positives = 65/228 (28%), Gaps = 86/228 (37%)
Query: 29 EFSTSNNVQTQVPARDE---GVIEK--------EDFVQEDKMSNHL-------------F 64
+F+ T+ A D+ E V+ K+ +
Sbjct: 36 QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY 95
Query: 65 ADQNS-HLKKYGVEYPKKETMSLSDVAARVRAEARGDARIIADAPSP-IANSILPSTDAL 122
+ N H + ++ +L ++ ARI+A P +NS L A+
Sbjct: 96 LEGNDIHA--LAAKLLQENDTTLVKTKELIKNYIT--ARIMAKRPFDKKSNSAL--FRAV 149
Query: 123 EEN-----AVMDKPLNEGLSPSSDLGMQA------EE-----SMYSPDLVDKCKGEEEAL 166
E A+ G Q EE Y L
Sbjct: 150 GEGNAQLVAI--------------FGGQGNTDDYFEELRDLYQTYHV------------L 183
Query: 167 VSSDVGDQVASSFDQLVKALRESESRSLDQLS--LDVLRPMLREWLDD 212
V GD + S + L + +R + + L++L WL++
Sbjct: 184 V----GDLIKFSAETLSELIRTTLDAE-KVFTQGLNILE-----WLEN 221
Score = 33.4 bits (76), Expect = 0.052
Identities = 29/135 (21%), Positives = 49/135 (36%), Gaps = 20/135 (14%)
Query: 111 IANSILPSTDALEENAVMDKPLNE----GLSPSSDLGMQAEESMYSPDLVDKCKGEEEAL 166
+ + +L T A L E L ++ +E +LV K G
Sbjct: 16 LEHVLLVPTA-SFFIAS---QLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG----Y 67
Query: 167 VSSDVGDQVASSFDQLVK-ALRESESRSLDQLSLDVLRPMLREWLDDNLPGIVER--LVR 223
VSS V FDQ++ L E E+ L+ + L + L +N +V+ L++
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHAL---AAKLLQENDTTLVKTKELIK 124
Query: 224 E--EIERIARGPIRH 236
+A+ P
Sbjct: 125 NYITARIMAKRPFDK 139
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A*
Length = 296
Score = 34.4 bits (78), Expect = 0.027
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRESESRSLDQLSLDVLRPMLREWLDDNLPG 216
E+ L + + + +K L S L+ + + L+E L D LP
Sbjct: 46 EKLLQETGIKESTK---TNTLKKLLR-FSVEAGGLTEENVVGKLQEILCDMLPS 95
>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 = 33.1 bits (74), Expect = 0.051
Identities = 8/38 (21%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 190 ESRSLDQLSLDVLRPMLREWLDDNLPGIVERLVREEIE 227
E ++L +L + L+ + DD+ P + ++ +E
Sbjct: 18 EKQALKKL-----QASLKLYADDSAPALA---IKATME 47
Score = 28.0 bits (61), Expect = 2.1
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 17/41 (41%)
Query: 49 EKEDFVQEDKM--SNHLFADQNSHLKKYGVEYPK---KETM 84
EK+ K+ S L+AD ++ P K TM
Sbjct: 18 EKQAL---KKLQASLKLYADDSA---------PALAIKATM 46
>2og2_A Putative signal recognition particle receptor; nucleotide-binding,
protein transport; 2.00A {Arabidopsis thaliana}
Length = 359
Score = 30.9 bits (69), Expect = 0.23
Identities = 16/101 (15%), Positives = 33/101 (32%), Gaps = 4/101 (3%)
Query: 116 LPSTDALEENAVMDKPLNEGLSPSSDL---GMQAEESMYSPDLVDKCKGEEEALVSSDVG 172
L + + ++K + G S + + + + EEAL+ SD G
Sbjct: 45 LGRLIKEKAKSDVEK-VFSGFSKTRENLAVIDELLLFWNLAETDRVLDELEEALLVSDFG 103
Query: 173 DQVASSFDQLVKALRESESRSLDQLSLDVLRPMLREWLDDN 213
++ + ++ S D L+ + E L
Sbjct: 104 PKITVRIVERLREDIMSGKLKSGSEIKDALKESVLEMLAKK 144
>3eh0_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N- acyltransferase; LPXD,
LEFT-handed parallel beta helix, acyl carrier protein,
antibiotic resistance; 2.60A {Escherichia coli}
Length = 341
Score = 30.7 bits (68), Expect = 0.28
Identities = 8/33 (24%), Positives = 19/33 (57%)
Query: 82 ETMSLSDVAARVRAEARGDARIIADAPSPIANS 114
++ L+D+A ++ AE GD I+ + + ++
Sbjct: 2 ASIRLADLAQQLDAELHGDGDIVITGVASMQSA 34
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase,
protein-targeting, transport protein; HET: GDP; 1.97A
{Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*
Length = 328
Score = 30.1 bits (67), Expect = 0.41
Identities = 11/65 (16%), Positives = 26/65 (40%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRESESRSLDQLSLDVLRPMLREWLDDNLPGIVERLV 222
E L+ +DV +V + + +K + + ++ ++E + + L +
Sbjct: 60 EIDLLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEAVSEILETSRRIDL 119
Query: 223 REEIE 227
EEI
Sbjct: 120 IEEIR 124
>1p4o_A Insulin-like growth factor I receptor protein; IGF-1R, kinase
domain, hormone/growth factor complex; 1.50A {Homo
sapiens} SCOP: d.144.1.7 PDB: 1m7n_A 1jqh_A* 2zm3_A*
3f5p_A* 3i81_A* 2oj9_A* 3d94_A* 1k3a_A* 2z8c_A* 1ir3_A*
1gag_A* 1irk_A 3bu3_A* 2auh_A* 1rqq_A* 2b4s_B* 3bu5_A*
3bu6_A* 1p14_A 3ekk_A* ...
Length = 322
Score = 30.1 bits (67), Expect = 0.52
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 1 MAQYNAVSEPSMEEIVNSIRRILENNDQEFSTSNNVQTQVPARDE 45
QYN PS EI++SI+ +E +E S + + ++P +E
Sbjct: 276 CWQYNPKMRPSFLEIISSIKEEMEPGFREVSFYYSEENKLPEPEE 320
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein
transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A
Length = 320
Score = 29.4 bits (65), Expect = 0.84
Identities = 9/59 (15%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRESESRSLDQLSLDVLRPMLREWLDDNLPGIVERL 221
E+ L+ +D+G ++ LV+ + S + + ++ + + + D++ R+
Sbjct: 41 EDVLIQTDMGMKMVLKVSNLVRK-KTKRDTSFENIKDALVESLYQAYTDNDWTNKKYRI 98
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 28.8 bits (63), Expect = 1.1
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 68 NSHLKKYGVEYPKKETMSLSDVAARVRAEARGDARIIADAPSPIANS 114
+S L G + T SL +A ++ E +G+ + I +
Sbjct: 11 SSGLVPRGSHMSQS-TYSLEQLADFLKVEFQGNGATLLSGVEEIEEA 56
>3ewh_A Vascular endothelial growth factor receptor 2; angiogenesis,
receptor tyrosine kinase, DFG-OUT, transferase; HET:
K11; 1.60A {Homo sapiens} PDB: 2qu5_A* 2qu6_A* 2rl5_A*
3b8q_A* 3b8r_A* 2p2h_A* 3cp9_A* 3cpb_A* 3cpc_A* 3dtw_A*
3be2_A* 2p2i_A* 1ywn_A* 1vr2_A* 3c7q_A* 2oh4_A* 3cjf_A*
3cjg_A*
Length = 314
Score = 27.9 bits (61), Expect = 1.9
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 1 MAQYNAVSEPSMEEIVNSIRRILENNDQE 29
P+ E+V + +L+ N Q+
Sbjct: 278 CWHGEPSQRPTFSELVEHLGNLLQANAQQ 306
>2b0l_A GTP-sensing transcriptional pleiotropic repressor CODY;
DNA-binding, nucleotide-binding, transcription
regulation, winged HTH motif.; 2.90A {Bacillus subtilis}
SCOP: a.4.5.66
Length = 102
Score = 27.9 bits (62), Expect = 2.1
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 155 LVDKCKGEEEALVSSDVGDQVASSFDQLVKALR--ES----ESRSLDQ--LSLDVLRPML 206
+ ++ G E LV+S + D+V + +V ALR ES ESRSL + VL
Sbjct: 33 IFEELDGNEGLLVASKIADRVGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNNKF 92
Query: 207 REWLD 211
L+
Sbjct: 93 LIELE 97
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition
particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A
{Sulfolobus solfataricus P2} PDB: 1qzx_A 1qzw_A
Length = 433
Score = 27.7 bits (61), Expect = 2.4
Identities = 8/58 (13%), Positives = 22/58 (37%), Gaps = 10/58 (17%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRE-------SESRSLDQLSLDVLRPMLREWLDDN 213
+++L+SSDV ++ L ++E + + ++ L + +
Sbjct: 32 QKSLISSDVNVKLV---FSLTAKIKERLNKEKPPSVLERKEWFISIVYDELSKLFGGD 86
>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 = 27.4 bits (60), Expect = 2.6
Identities = 8/52 (15%), Positives = 20/52 (38%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRESESRSLDQLSLDVLRPMLREWLDDNL 214
+ AL+ +DV ++ + ++ E + + ++ E L L
Sbjct: 36 QRALIQADVNVRLVLQLTREIQRRALEEKPPAGISKKEHIIKIVYEELTKFL 87
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein
translocation, GTP-binding, nucleotide-binding, protein
transport; 1.75A {Arabidopsis thaliana}
Length = 302
Score = 27.5 bits (60), Expect = 2.8
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 6/60 (10%)
Query: 132 LNEGLSPSSD-LGMQAEESMY-SPDLVDKCKGE-EEALVSSDVGDQVASSFDQLVKALRE 188
+ G S + + L + E ++ + D+ E EEAL+ SD G ++ ++V+ LRE
Sbjct: 3 VFSGFSKTRENLAVIDELLLFWNLAETDRVLDELEEALLVSDFGPKIT---VRIVERLRE 59
>3noq_A THIJ/PFPI family protein; DJ-1 superfamily, isocyanide hydratase,
isonitrIle hydratase; HET: NHE; 1.00A {Pseudomonas
fluorescens} PDB: 3noo_A 3nor_A* 3nov_A
Length = 231
Score = 27.5 bits (61), Expect = 2.8
Identities = 12/69 (17%), Positives = 20/69 (28%), Gaps = 2/69 (2%)
Query: 165 ALVSSDVGDQVASS-FDQLVKALRESESRSLDQLSLDVLRPMLREWLDDNLPGIVERLVR 223
L + A QL A + + + R+ D+L E +
Sbjct: 164 TLAAELFDAATAQRVQLQLEYAPAPPFNAGSPDTAPASVVQQARQRAADSLHKRRE-ITL 222
Query: 224 EEIERIARG 232
R+A G
Sbjct: 223 RAAARLAAG 231
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo
sapiens} SCOP: a.159.4.1
Length = 70
Score = 27.4 bits (61), Expect = 3.2
Identities = 11/50 (22%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 9 EPSMEEIVNSIRRILENNDQEFSTSNNVQTQVPARDEGV--IEKEDFVQE 56
P+ EE+ +I+++L + + E T + +V E++DF++
Sbjct: 11 PPTDEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLTERKDFIKT 60
>1y6a_A Vascular endothelial growth factor receptor 2; transferase; HET:
AAZ; 2.10A {Homo sapiens} PDB: 1y6b_A* 3hng_A*
Length = 366
Score = 27.2 bits (59), Expect = 3.4
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 1 MAQYNAVSEPSMEEIVNSIRRILENNDQE 29
P+ E+V + +L+ N Q+
Sbjct: 337 CWHGEPSQRPTFSELVEHLGNLLQANAQQ 365
>3mdy_A Bone morphogenetic protein receptor type-1B; complex
(isomerase-protein kinase), receptor serine/threonin
structural genomics consortium, SGC; HET: LDN; 2.05A
{Homo sapiens}
Length = 337
Score = 27.2 bits (60), Expect = 3.5
Identities = 2/18 (11%), Positives = 9/18 (50%)
Query: 10 PSMEEIVNSIRRILENND 27
+ + ++ ++ E+ D
Sbjct: 317 LTALRVKKTLAKMSESQD 334
>2qy9_A Cell division protein FTSY; SRP receptor, protein targeting, simibi
class GTPase, cell cycle, GTP-binding, inner membrane,
membrane; 1.90A {Escherichia coli} SCOP: a.24.13.1
c.37.1.10 PDB: 1fts_A
Length = 309
Score = 27.0 bits (59), Expect = 3.5
Identities = 14/59 (23%), Positives = 23/59 (38%), Gaps = 5/59 (8%)
Query: 132 LNEGLSPSSD-LGMQAEESMYSPDLVDKCKGE-EEALVSSDVGDQVASSFDQLVKALRE 188
L L + + LG + D E EE L+ +DVG + +++ L E
Sbjct: 5 LKRSLLKTKENLGSGFISLFRGKKIDDDLFEELEEQLLIADVGVETT---RKIITNLTE 60
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer,
nucleotide twinning, protein-protein complex, protein
transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP:
a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D*
2iyl_D* 2cnw_D* 2j7p_D*
Length = 304
Score = 27.1 bits (59), Expect = 4.1
Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 132 LNEGLSPSSDLGMQAEESMYSPDLVDKCKGE-EEALVSSDVGDQVASSFDQLVKALRESE 190
L GL+ + + + +++ +++ E E AL+++DVG Q V+A +
Sbjct: 7 LKAGLAKTRE---RLLKAIPWGGNLEEVLEELEMALLAADVGLSATEEILQEVRASGRKD 63
Query: 191 SRSL 194
+
Sbjct: 64 LKEA 67
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCSG,
protein structure initiative, PSI, joint center for
structural genomics; HET: CIT; 1.60A {Thermotoga
maritima} SCOP: a.24.13.1 c.37.1.10
Length = 306
Score = 26.7 bits (58), Expect = 4.3
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 132 LNEGLSPSSD-LGMQAEESMYSPDLVDKCKGE-EEALVSSDVGDQVASSF 179
L +GL + + + + + L D+ + E EE L+ +DVG +
Sbjct: 19 LKKGLQKTKETFFGRVVKLLKGKKLDDETREELEELLIQADVGVETTEYI 68
>1l9x_A Gamma-glutamyl hydrolase; 1.60A {Homo sapiens} SCOP: c.23.16.1
Length = 315
Score = 26.7 bits (58), Expect = 4.4
Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 4/65 (6%)
Query: 24 ENNDQEFSTSNNVQTQVPARDEGVIEKEDFVQEDKMSNHLFAD---QNSHL-KKYGVEYP 79
E E+ + + A E FV E + +NH F + L ++ Y
Sbjct: 243 EKAPYEWKNLDGISHAPNAVKTAFYLAEFFVNEARKNNHHFKSESEEEKALIYQFSPIYT 302
Query: 80 KKETM 84
+
Sbjct: 303 GNISS 307
>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 = 4.8
Identities = 8/55 (14%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 163 EEALVSSDVGDQVASSF-DQLVKALRESESR---SLDQLSLDVLRPMLREWLDDN 213
+ AL+ +DV ++ ++ + E ++ S + + ++ L + L +
Sbjct: 34 QRALIQADVNVKLVLKMSKEIERRALEEKTPKGLSKKEHIIKIVYEELVKLLGEE 88
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase,
ultrahigh resolution, protein transport; 1.10A {Thermus
aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B*
1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B*
2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 3ng1_A 1ffh_A
2ng1_A*
Length = 295
Score = 26.6 bits (58), Expect = 5.2
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 10/58 (17%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRE-------SESRSLDQLSLDVLRPMLREWLDDN 213
AL+ +DV +VA V+ +RE ES + ++ L + L+E L
Sbjct: 35 RRALMDADVNLEVA---RDFVERVREEALGKQVLESLTPAEVILATVYEALKEALGGE 89
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M
domain, RNA-binding, signal sequence-binding,
helix-turn-helix, protein targeting; 3.20A {Thermus
aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB:
2iy3_A
Length = 425
Score = 26.6 bits (58), Expect = 5.2
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 10/55 (18%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRE-------SESRSLDQLSLDVLRPMLREWL 210
AL+ +DV +V V+ +RE ES + ++ L + L+E L
Sbjct: 35 RRALMDADVNLEVT---RDFVERVREEALGKQVLESLTPAEVILATVYEALKEAL 86
>3lvf_P GAPDH 1, glyceraldehyde-3-phosphate dehydrogenase 1;
oxidoreductase, glycolysis, rossmann fold; HET: NAD;
1.70A {Staphylococcus aureus} PDB: 3l6o_Q 3k73_Q 3lc2_O*
3lc7_O 3lc1_P* 3hq4_R* 3kv3_O* 3l4s_Q* 3k9q_Q* 3ksd_Q*
3ksz_O*
Length = 338
Score = 26.2 bits (58), Expect = 5.9
Identities = 10/19 (52%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 163 EEALVSSD-VGDQVASSFD 180
E+ +VSSD VG S FD
Sbjct: 277 EDEIVSSDVVGMTYGSLFD 295
>2j28_9 Signal recognition particle 54; ribosome, protein/RNA complex; 8.0A
{Escherichia coli}
Length = 430
Score = 26.2 bits (57), Expect = 6.4
Identities = 10/58 (17%), Positives = 24/58 (41%), Gaps = 10/58 (17%)
Query: 163 EEALVSSDVGDQVASSFDQLVKALRE-------SESRSLDQLSLDVLRPMLREWLDDN 213
AL+ +DV V + + ++E ++S + Q + ++R L + +
Sbjct: 34 RMALLEADVALPVV---REFINRVKEKAVGHEVNKSLTPGQEFVKIVRNELVAAMGEE 88
>2psq_A Fibroblast growth factor receptor 2; kinase domain fold consisting
of N- and C-lobes, transferase; 2.40A {Homo sapiens}
SCOP: d.144.1.7 PDB: 1xr0_A
Length = 370
Score = 26.3 bits (57), Expect = 6.5
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 1 MAQYNAVSEPSMEEIVNSIRRILENNDQE 29
P+ +++V + RIL E
Sbjct: 341 CWHAVPSQRPTFKQLVEDLDRILTLTTNE 369
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A
{Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB:
1j8y_F
Length = 297
Score = 26.2 bits (57), Expect = 7.4
Identities = 10/64 (15%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 163 EEALVSSDVGDQVASSF-DQLVKALRESESRSLDQLSLDVLRPMLREWLDDNLPGIVERL 221
+++L+S+DV ++ S +++ + L+ + + + + ++ + L + G E
Sbjct: 33 QKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERR-EWFIKIVYDELSNLFGGDKEPK 91
Query: 222 VREE 225
V +
Sbjct: 92 VIPD 95
>3dxp_A Putative acyl-COA dehydrogenase; YP_295230.1, structural genomics,
joint center for structural genomics, JCSG; 2.32A
{Ralstonia eutropha JMP134}
Length = 359
Score = 26.0 bits (56), Expect = 7.8
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 5/38 (13%)
Query: 195 DQLSLDVLRPMLREWLDDNLPGIVERLVREEIERIARG 232
DQ D L W+ ++ G L +E+ G
Sbjct: 17 DQQRFDTEA--LEAWMRQHVEGFAGPL---SVEQFKGG 49
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural genomics, NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii OT3}
Length = 357
Score = 26.0 bits (56), Expect = 7.9
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 206 LREWLDDNLPGIVERLVREEIERIAR 231
++E + L + E++ RE+IER R
Sbjct: 326 VKEEIIKTLRPLAEKVAREKIERELR 351
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 25.9 bits (56), Expect = 9.3
Identities = 10/55 (18%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 163 EEALVSSDVGDQVASSFDQLVK--ALRESESRSLD--QLSLDVLRPMLREWLDDN 213
AL+ +DV ++ + VK E + L+ ++ + L + +D
Sbjct: 36 CTALLEADVNIKLVKQLRENVKSAIDLEEMASGLNKRKMIQHAVFKELVKLVDPG 90
>2qol_A Ephrin receptor; receptor tyrosine kinase, juxtamembrane segment,
structural genomics, mutant, structural genomics
consortium, SGC, ATP- binding; 1.07A {Homo sapiens} PDB:
2qok_A 2qoi_A 2qoo_A 2qof_A 2qod_A 2qo9_A* 2gsf_A
2qo7_A* 2qo2_A* 2qoq_A* 2qon_A* 3fxx_A* 3fy2_A 2qoc_A*
2qob_A* 3dzq_A* 2r2p_A 2hel_A 2rei_A 3dko_A* ...
Length = 373
Score = 25.8 bits (56), Expect = 9.3
Identities = 17/87 (19%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 1 MAQYNAVSEPSMEEIVNSIRRILEN-NDQEFSTSNNVQTQVPARDEGVIEKEDFVQ-EDK 58
Q + + P E+IV+ + +++ N + TS + D+ ++ F D
Sbjct: 286 CWQKDRNNRPKFEQIVSILDKLIRNPGSLKIITSAAARPSNLLLDQSNVDITTFRTTGDW 345
Query: 59 MSNHLFADQNSHLKKYGVEYPKKETMS 85
++ A GVEY +T++
Sbjct: 346 LNGVWTAHCKEIFT--GVEYSSCDTIA 370
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
0.310 0.128 0.344
Gapped
Lambda K H
0.267 0.0621 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,918,365
Number of extensions: 86440
Number of successful extensions: 317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 51
Length of query: 236
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 147
Effective length of database: 3,535,514
Effective search space: 519720558
Effective search space used: 519720558
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.2 bits)