RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2958
(129 letters)
>4f0a_B Protein WNT-8, XWNT-8; WNT signaling, ligand-receptor complex,
frizzled, fatty acylation, glycosylation, signaling
protein; HET: NAG BMA MAN FUC PAM; 3.25A {Xenopus
laevis}
Length = 316
Score = 78.9 bits (193), Expect = 1e-18
Identities = 28/104 (26%), Positives = 52/104 (50%), Gaps = 15/104 (14%)
Query: 1 MQRVCKCHGMSGSCSVKVCWKRLPSFQQVGDILASRYEGAYFVKQVGDILASRYEGAYFV 60
M+R CKCHG+SGSCS++ CW +L F+ +G+ L +++ A ++ +
Sbjct: 155 MKRTCKCHGISGSCSIQTCWLQLAEFRDIGNHLKIKHDQALKLE---------------M 199
Query: 61 KVVNNQRKRNVKRLRSAVRDAKQPNRTELVYMEESPDYCQRNET 104
+ + + +EL+++E+SPDYC +N +
Sbjct: 200 DKRKMRSGNSADNRGAIADAFSSVAGSELIFLEDSPDYCLKNIS 243
>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 = 31.1 bits (69), Expect = 0.067
Identities = 6/30 (20%), Positives = 17/30 (56%), Gaps = 11/30 (36%)
Query: 68 KRNVKRLRSAVRDAKQPNRTELVYMEES-P 96
K+ +K+L+++++ +Y ++S P
Sbjct: 19 KQALKKLQASLK----------LYADDSAP 38
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human
spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 3s3m_A* 3l2q_A
3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A*
3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A*
3oyb_A* 3oyg_A* ...
Length = 395
Score = 28.1 bits (63), Expect = 0.85
Identities = 12/72 (16%), Positives = 22/72 (30%), Gaps = 13/72 (18%)
Query: 33 LASRYEGAYFVKQVGDILASRYEGAYFVKVVN-NQRKRNVKRLRSAVRDAKQPNRTELVY 91
L R+ V +V + N R ++ L+ N T
Sbjct: 336 LRPRWHKPSTVLKV------LNPRTVVILDHLGNNRTVSIDNLKPTSHQNGTTNDT---- 385
Query: 92 MEESPDYCQRNE 103
+ D+ ++NE
Sbjct: 386 --ATMDHLEKNE 395
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 27.9 bits (61), Expect = 0.98
Identities = 19/124 (15%), Positives = 34/124 (27%), Gaps = 31/124 (25%)
Query: 8 HGMSGSCSVKVCWKRLPSFQQVGDILASRYEGAYFVKQVGDILASRYEGAYFVKVVNNQR 67
G+ G K +A V + +++ + N
Sbjct: 156 DGVLG------SGK------TW---VALD------VCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 68 KRNV-KRLRSAVRDAKQPNRTELVYMEESPDYCQRNETGRGR-SDLFPEPSSSNRPPNFL 125
V + L+ + PN T + S + R + + L S N L
Sbjct: 195 PETVLEMLQKLLYQID-PNWTSRS--DHSSNIKLRIHSIQAELRRLL----KSKPYENCL 247
Query: 126 LCIL 129
L +L
Sbjct: 248 L-VL 250
Score = 27.5 bits (60), Expect = 1.6
Identities = 16/97 (16%), Positives = 31/97 (31%), Gaps = 27/97 (27%)
Query: 29 VGDILASRYEGAYFVKQVGDILASRYEGAY-------------FVKVVNNQRKRNVKRLR 75
V ++L Y+ + S Y F K N R + +LR
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY-NVSRLQPYLKLR 141
Query: 76 SAVRDAKQPNRTELVY-MEESPDYCQRNETGRGRSDL 111
A+ + +P + L+ + G G++ +
Sbjct: 142 QALLEL-RPAKNVLIDGV-----------LGSGKTWV 166
Score = 26.7 bits (58), Expect = 2.5
Identities = 25/145 (17%), Positives = 48/145 (33%), Gaps = 36/145 (24%)
Query: 10 MSGSCSVKVCWKRLPSFQQVGDILASRYEGAYFVKQVGDILASRYEGAYFVKVVNNQRKR 69
+ SC + + F+QV D L++ + L + +K ++
Sbjct: 262 FNLSCKILL----TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC---- 313
Query: 70 NVKRLRS---------------AVRDA-------KQPNRTELV-YMEESPDYCQRNETGR 106
+ L ++RD K N +L +E S + + E +
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 107 GRSDL--FPEPSSSNRPPNFLLCIL 129
L FP S++ P LL ++
Sbjct: 374 MFDRLSVFPP--SAHIPTI-LLSLI 395
>3l5i_A Interleukin-6 receptor subunit beta; cytokine receptor,
fibronectin type III domain, alternative cell membrane,
disulfide bond; 1.90A {Homo sapiens} PDB: 3l5j_A
Length = 290
Score = 27.8 bits (62), Expect = 1.0
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 3 RVCKCHGMSGSCSVKVCWKRLPSFQQVGDIL 33
G +V++ WK LP F+ G IL
Sbjct: 12 YKIDPSHTQGYRTVQLVWKTLPPFEANGKIL 42
>3l5h_A Interleukin-6 receptor subunit beta; IG-like, FNIII, cell membrane,
disulfide bond, glycoprotein, immunoglobulin domain,
membrane, phosphoprotein; HET: NAG NDG BMA FUC; 3.60A
{Homo sapiens}
Length = 589
Score = 27.3 bits (60), Expect = 1.8
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 8 HGMSGSCSVKVCWKRLPSFQQVGDIL 33
G +V++ WK LP F+ G IL
Sbjct: 316 SHTQGYRTVQLVWKTLPPFEANGKIL 341
>1vkn_A N-acetyl-gamma-glutamyl-phosphate reductase; TM1782, structu
genomics, JCSG, PSI, protein structure initiative, joint
CE structural genomics; 1.80A {Thermotoga maritima}
SCOP: c.2.1.3 d.81.1.1
Length = 351
Score = 26.3 bits (59), Expect = 2.8
Identities = 7/33 (21%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 32 ILASRY-EGAYFVKQVGDILASRYEGAYFVKVV 63
IL++ Y + ++++ + Y+ FV V+
Sbjct: 249 ILSTIYVKTDKSLEEIHEAYLEFYKNEPFVHVL 281
>1z57_A Dual specificity protein kinase CLK1; protein tyrosine kinase,
splicing, human, 10Z-hymendialdisine, structural
genomics; HET: DBQ; 1.70A {Homo sapiens} PDB: 2vag_A*
Length = 339
Score = 26.5 bits (59), Expect = 2.9
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 20/56 (35%)
Query: 41 YFVKQVGDILASRYE-------GAYF---VKVVNNQRK---------RNVKRLRSA 77
+ + Q GD+L++RYE GA F V+ ++++ +NV R A
Sbjct: 3 HLICQSGDVLSARYEIVDTLGEGA-FGKVVECIDHKAGGRHVAVKIVKNVDRYCEA 57
>2o0t_A Diaminopimelate decarboxylase; PLP binding enzyme, lysine
biosynthesis, STRU genomics, TB structural genomics
consortium, TBSGC; HET: LLP; 2.33A {Mycobacterium
tuberculosis} PDB: 1hkv_A* 1hkw_A
Length = 467
Score = 26.4 bits (59), Expect = 3.1
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 13/46 (28%)
Query: 17 KVC-------WKR-LPSFQQVGDILASRYEGAYFVKQVGDILASRY 54
K C +P + GD++A GAY L+SRY
Sbjct: 375 KHCESGDIIVRDTWVPDDIRPGDLVAVAATGAY-----CYSLSSRY 415
>3llt_A Serine/threonine kinase-1, pflammer; lammer kinase, malaria,
structural GE structural genomics consortium, SGC,
transferase; HET: ANP; 2.50A {Plasmodium falciparum 3D7}
Length = 360
Score = 25.7 bits (57), Expect = 5.2
Identities = 12/85 (14%), Positives = 24/85 (28%), Gaps = 28/85 (32%)
Query: 41 YFVKQVGDILASRYE-------GAYF---VKVVNNQRK--------RNVKRLRSAVRD-- 80
+F + G +L + + G F + + K RN+K+ + +
Sbjct: 24 HFSWKKGMLLNNAFLVIRKMGDGT-FGRVLLCQHIDNKKYYAVKVVRNIKKYTRSAKIEA 82
Query: 81 -------AKQPNRTELVYMEESPDY 98
N +V Y
Sbjct: 83 DILKKIQNDDINNNNIVKYHGKFMY 107
>1xyg_A Putative N-acetyl-gamma-glutamyl-phosphate reduct; structural
genomics, protein structure initiative, CENT eukaryotic
structural genomics; 2.19A {Arabidopsis thaliana} SCOP:
c.2.1.3 d.81.1.1 PDB: 2q49_A 2cvo_A
Length = 359
Score = 25.6 bits (57), Expect = 5.8
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 32 ILASRY---EGAYFVKQVGDILASRYEGAYFVKVV 63
+ ++ Y + + L + YE FVKV+
Sbjct: 255 MQSTIYVEMAPGVRTEDLHQQLKTSYEDEEFVKVL 289
>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
{Helicobacter pylori} PDB: 3c5q_A*
Length = 425
Score = 25.2 bits (56), Expect = 7.1
Identities = 12/34 (35%), Positives = 16/34 (47%), Gaps = 6/34 (17%)
Query: 21 KRLPSFQQVGDILASRYEGAYFVKQVGDILASRY 54
LP + GD +A GAY G +AS+Y
Sbjct: 359 AHLPELEP-GDKIAIEKVGAY-----GSSMASQY 386
>2k88_A Vacuolar proton pump subunit G; G subunit, V1VO ATPase, VMA10P,
hydrogen ION transport, hydrolase, ION transport,
transport; NMR {Saccharomyces cerevisiae}
Length = 60
Score = 23.8 bits (51), Expect = 9.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 61 KVVNNQRKRNVKRLRSAVRDAKQ 83
++V+ RK +L+ A DA +
Sbjct: 20 EIVSKARKYRQDKLKQAKTDAAK 42
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.135 0.417
Gapped
Lambda K H
0.267 0.0430 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,894,898
Number of extensions: 97539
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 21
Length of query: 129
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,384,350
Effective search space: 201680100
Effective search space used: 201680100
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: 52 (24.6 bits)