RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 029362
(194 letters)
>3u5e_H L8, RP24, YL11, 60S ribosomal protein L9-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_F
1s1i_H 3izs_F* 3j16_F 3o5h_I 3o58_I 3u5i_H 3jyw_H
Length = 191
Score = 245 bits (628), Expect = 5e-84
Identities = 98/195 (50%), Positives = 137/195 (70%), Gaps = 7/195 (3%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MK I + + +++P+GV V I +++++V GPRG L+++ KH+++ F + + +K+
Sbjct: 1 MKYIQTEQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLKHIDVTF-----TKVNNQLIKV 55
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASI--GNNNKAIEIR 118
G RK AA+RT S V N+ITGVTKGY+YKMR+VYAHFPIN +I + K IE+R
Sbjct: 56 AVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAKFIEVR 115
Query: 119 NFLGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKF 178
NFLG+KK+R V + DGVT+ S VKDE+VL GN +E VS++AA + Q C V+NKDIRKF
Sbjct: 116 NFLGDKKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQICRVRNKDIRKF 175
Query: 179 LDGIYVSEKSTILGE 193
LDGIYVS K I +
Sbjct: 176 LDGIYVSHKGFITED 190
>3iz5_F 60S ribosomal protein L9 (L6P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_F
Length = 190
Score = 241 bits (618), Expect = 2e-82
Identities = 155/193 (80%), Positives = 175/193 (90%), Gaps = 4/193 (2%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTIL+SETM+IP+GV V++ AKV+ VEGPRGKL+R+FKHLNLDF L G RKL++
Sbjct: 1 MKTILASETMEIPEGVTVQVAAKVVTVEGPRGKLTRNFKHLNLDFQL----LEGGRKLQV 56
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
DAWFG+R+T AAIRTA+SHV NLITGVTKGYRYKMRFVYAHFPINASI N+N AIEIRNF
Sbjct: 57 DAWFGTRRTMAAIRTAISHVQNLITGVTKGYRYKMRFVYAHFPINASITNSNTAIEIRNF 116
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEKKVRKVDML+GVT++RS+KVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD
Sbjct: 117 LGEKKVRKVDMLEGVTILRSEKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 176
Query: 181 GIYVSEKSTILGE 193
GIYVS+K TI +
Sbjct: 177 GIYVSDKGTITED 189
>4a17_E RPL9, 60S ribosomal protein L9; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_E 4a1c_E 4a1e_E
Length = 188
Score = 240 bits (614), Expect = 6e-82
Identities = 78/193 (40%), Positives = 125/193 (64%), Gaps = 5/193 (2%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
M+ +L+ + IPD V + +V+EV+GP G + R F++ ++D ++ +K+
Sbjct: 1 MRHLLTEVNVPIPDKVTITAKQRVVEVKGPLGTIKRAFRYASVDI-----QKPTADNVKL 55
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
W SRK A +++ S + N+I GVT+GY++KM+ +AHFPI ++ + +IEI++F
Sbjct: 56 QIWQASRKERAVLQSIASQIKNMIRGVTEGYKFKMKLAFAHFPIQEAVAKDGSSIEIKHF 115
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEK++R++ L GV + R D+ K+ L L G D+ VS++ ALI+Q C VK KDIR+FLD
Sbjct: 116 LGEKRIRRIQALPGVKISRKDEEKNTLTLQGIDLNNVSQTCALIHQSCLVKEKDIRQFLD 175
Query: 181 GIYVSEKSTILGE 193
GIYVS+K + E
Sbjct: 176 GIYVSDKRLAMNE 188
>2zkr_e 60S ribosomal protein L9; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 192
Score = 235 bits (601), Expect = 6e-80
Identities = 109/194 (56%), Positives = 139/194 (71%), Gaps = 3/194 (1%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTILS++T+DIP+ V + + + + V+GPRG L RDF H+N++ L+ ++ +L++
Sbjct: 1 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKK---RLRV 57
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNF 120
D W+G+RK A +RT SHV N+I GVT G+RYKMR VYAHFPIN I N +EIRNF
Sbjct: 58 DKWWGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNF 117
Query: 121 LGEKKVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLD 180
LGEK +R+V M GV S KDEL+L+GNDIELVS SAALI Q VKNKDIRKFLD
Sbjct: 118 LGEKYIRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALIQQATTVKNKDIRKFLD 177
Query: 181 GIYVSEKSTILGEE 194
GIYVSEK T+ +
Sbjct: 178 GIYVSEKGTVQQAD 191
>1vq8_E 50S ribosomal protein L6P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: d.141.1.1 d.141.1.1 PDB:
1vq4_E* 1vq5_E* 1vq6_E* 1vq7_E* 1s72_E* 1vq9_E* 1vqk_E*
1vql_E* 1vqm_E* 1vqn_E* 1vqo_E* 1vqp_E* 1yhq_E* 1yi2_E*
1yij_E* 1yit_E* 1yj9_E* 1yjn_E* 1yjw_E* 2otj_E* ...
Length = 178
Score = 215 bits (549), Expect = 3e-72
Identities = 56/183 (30%), Positives = 96/183 (52%), Gaps = 11/183 (6%)
Query: 5 LSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWF 64
+ ++IP+ V + + I VEG G ++R + ++D + + I++
Sbjct: 1 MPRVELEIPEDVDAEQDHLDITVEGDNGSVTRRLWYPDIDVSV------DGDTVVIESDE 54
Query: 65 GSRKTSAAIRTALSHVGNLITGVTKGYRYKMRFVYAHFPINASIGNNNKAIEIRNFLGEK 124
+ KT + I T SH+ N+ GVT+G+ Y M Y+HFP+ ++ + + I NFLGEK
Sbjct: 55 DNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDE--VVIENFLGEK 112
Query: 125 KVRKVDMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYV 184
R+ + V + +EL + G DIE V ++AA I Q + +KD+R F DG+Y+
Sbjct: 113 APRRTTIHGDTDV---EIDGEELTVSGPDIEAVGQTAADIEQLTRINDKDVRVFQDGVYI 169
Query: 185 SEK 187
+ K
Sbjct: 170 TRK 172
>2cql_A OK/SW-CL.103, 60S ribosomal protein L9; N-terminal domain, alpha
and beta (A+B), structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.141.1.1
Length = 100
Score = 106 bits (266), Expect = 3e-30
Identities = 41/91 (45%), Positives = 64/91 (70%), Gaps = 3/91 (3%)
Query: 1 MKTILSSETMDIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKI 60
MKTILS++T+DIP+ V + + + + V+GPRG L RDF H+N++ L+ ++ ++L++
Sbjct: 8 MKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKK---KRLRV 64
Query: 61 DAWFGSRKTSAAIRTALSHVGNLITGVTKGY 91
D W+G+RK A +RT SHV N+I GVT G
Sbjct: 65 DKWWGNRKELATVRTICSHVQNMIKGVTLGS 95
>3bbo_I Ribosomal protein L6; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 223
Score = 49.6 bits (119), Expect = 9e-08
Identities = 15/85 (17%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+P V + + + ++V+GP G+L+ + + + L++ +R+ +
Sbjct: 52 AVPSNVTIALEGQDLKVKGPLGELALTYP------REVELTKEESGFLRVKKTVETRRAN 105
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
+ N++ GV+KG+ K+
Sbjct: 106 QMHGLFRTLTDNMVVGVSKGFEKKL 130
>3r8s_G 50S ribosomal protein L6; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_E 1p86_E 2awb_G 2aw4_G 2i2v_G 2j28_G 2i2t_G*
2qao_G* 2qba_G* 2qbc_G* 2qbe_G 2qbg_G 2qbi_G* 2qbk_G*
2qov_G 2qox_G 2qoz_G* 2qp1_G* 2rdo_G 2vhm_G ...
Length = 176
Score = 47.1 bits (113), Expect = 4e-07
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 7/85 (8%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+P GV VKIN +VI ++G G+L+R + + L G
Sbjct: 9 VVPAGVDVKINGQVITIKGKNGELTRTLN------DAVEVKHADN-TLTFGPRDGYADGW 61
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
A TA + + +++ GVT+G+ K+
Sbjct: 62 AQAGTARALLNSMVIGVTEGFTKKL 86
>1rl6_A Protein (ribosomal protein L6); RNA-binding protein, gentamicin
resistance, alpha/beta protein; 2.00A {Geobacillus
stearothermophilus} SCOP: d.141.1.1 d.141.1.1 PDB:
1giy_H 1ml5_h* 1c04_B 1yl3_H 2b66_H 2b9n_H 2b9p_H
1eg0_J 487d_J
Length = 177
Score = 45.9 bits (110), Expect = 9e-07
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 7/85 (8%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+IP GV V +N + V+GP+G+L+R F + D + + + + +
Sbjct: 9 EIPAGVTVTVNGNTVTVKGPKGELTRTF---HPDMTITVEGNV----ITVTRPSDEKHHR 61
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
A T S + N++ GV+KGY +
Sbjct: 62 ALHGTTRSLLANMVEGVSKGYEKAL 86
>1nkw_E 50S ribosomal protein L6; ribosome, large subunit, X- RAY
structure, peptidyl-transferase, peptide bond formation;
3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB:
1sm1_E*
Length = 212
Score = 45.7 bits (109), Expect = 2e-06
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+P GV V V +V+GP+G+L+ + + L D+ +R ++K
Sbjct: 37 AVPSGVTVNAQDGVFKVKGPKGELTVPY-NTELTVRQDGDQLLVERPSD------AQKHR 89
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
A + V N + GV+ GY +
Sbjct: 90 ALHGLTRTLVANAVKGVSDGYTINL 114
>3v2d_H 50S ribosomal protein L6; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_F 2hgj_H 2hgq_H 2hgu_H 1vsa_F 2j03_H 2jl6_H
2jl8_H 2v47_H 2v49_H 2wdi_H 2wdj_H 2wdl_H 2wdn_H 2wh2_H
2wh4_H 2wrj_H 2wrl_H 2wro_H 2wrr_H ...
Length = 180
Score = 45.2 bits (108), Expect = 2e-06
Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 7/85 (8%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+P GV V++ ++V+GP+G+L + + +R R+
Sbjct: 10 PVPKGVSVEVAPGRVKVKGPKGELEVPV-SPEMRVVVEEGVVRVERP------SDERRHK 62
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
+ + + N + GV++GY ++
Sbjct: 63 SLHGLTRTLIANAVKGVSEGYSKEL 87
>2zjr_E 50S ribosomal protein L6; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.141.1.1 d.141.1.1 PDB: 1nwx_E*
1xbp_E* 2zjp_E* 2zjq_E 1nwy_E 3cf5_E* 3dll_E* 3pio_E*
3pip_E* 1pnu_E 1pny_E 1vor_H 1vou_H 1vow_H 1voy_H
1vp0_H
Length = 185
Score = 45.2 bits (108), Expect = 2e-06
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 11 DIPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTS 70
+P GV V V +V+GP+G+L+ + + L D+ +R ++K
Sbjct: 10 AVPSGVTVNAQDGVFKVKGPKGELTVPY-NTELTVRQDGDQLLVERPSD------AQKHR 62
Query: 71 AAIRTALSHVGNLITGVTKGYRYKM 95
A + V N + GV+ GY +
Sbjct: 63 ALHGLTRTLVANAVKGVSDGYTINL 87
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 42.3 bits (99), Expect = 5e-05
Identities = 23/155 (14%), Positives = 53/155 (34%), Gaps = 47/155 (30%)
Query: 7 SETMDIPDGVK-VKINAKVIEVEGPRGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFG 65
++ M I V+ V RG + + +E G+ + A
Sbjct: 1774 ADVMSIESLVEVVFY----------RGMTMQ---------VAVPRDELGRSNYGMIAINP 1814
Query: 66 SRKTSAAIRTALSHVGNLITGVTKGYRYKMRFV----YAHFPINAS-----IGNNNKAIE 116
R ++ + AL +V + T V Y N + +A++
Sbjct: 1815 GRVAASFSQEALQYVVERVGKRTGW------LVEIVNY-----NVENQQYVAAGDLRALD 1863
Query: 117 ----IRNFLGEKKVRKVDMLDGVTVIRSDKVKDEL 147
+ NF+ +K+ +++ +++ ++V+ L
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKSLSL---EEVEGHL 1895
Score = 27.7 bits (61), Expect = 3.3
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 149 LDGNDIELVSRSAALINQKCHVKNKD-IRKFLDGIYVSEKST 189
L+GNDI ++ N VK K+ I+ ++ ++++
Sbjct: 96 LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
>1s5d_A Cholera enterotoxin, A chain; heat-labIle enterotoxin, ADP ribose
transfera toxins, transferase,toxin; HET: GAL; 1.75A
{Vibrio cholerae} SCOP: d.166.1.1 PDB: 1s5c_A 1s5b_A*
1s5e_A* 1s5f_A* 1lt3_A* 1lt4_A* 1xtc_A 2a5d_B* 2a5f_B*
2a5g_B* 1lti_A* 1ltg_A 1htl_A 1lta_A* 1lts_A 1ltb_A
1ltt_A* 1xtc_C
Length = 240
Score = 30.6 bits (68), Expect = 0.26
Identities = 17/84 (20%), Positives = 35/84 (41%), Gaps = 7/84 (8%)
Query: 30 PRGKLSRDFKHLNLDFHL---MTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGNLITG 86
PRG+ + ++ +L +TG + D + TS ++R+A +++G
Sbjct: 24 PRGQSESFDRGTQMNINLYDHARGTQTGFVRHD-DGYVS---TSISLRSAHLVGQTILSG 79
Query: 87 VTKGYRYKMRFVYAHFPINASIGN 110
+ Y Y + F +N +G
Sbjct: 80 HSTYYIYVIATAPNMFNVNDVLGA 103
>1tii_A LT-IIB, heat labIle enterotoxin type IIB; ADP-ribosyl transferase,
ADP-ribosylation, ganglioside receptor; 2.25A
{Escherichia coli} SCOP: d.166.1.1
Length = 190
Score = 30.1 bits (67), Expect = 0.27
Identities = 17/84 (20%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 30 PRGKLSRDFKHLNLDFHL---MTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGNLITG 86
PRG+ + ++ +L TG + D + T+ +R A N++ G
Sbjct: 22 PRGQDEAYERGTPININLYDHARGTATGNTRYN-DGYVS---TTTTLRQAHLLGQNMLGG 77
Query: 87 VTKGYRYKMRFVYAHFPINASIGN 110
+ Y Y + F +N +G
Sbjct: 78 YNEYYIYVVAAAPNLFDVNGVLGR 101
>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 = 30.6 bits (68), Expect = 0.37
Identities = 18/100 (18%), Positives = 34/100 (34%), Gaps = 27/100 (27%)
Query: 31 RGKLSRDFKHLNLDFHLMTDEETGKRKLKIDAWFGSRKTSAAIRTALSHVGNLITGVTKG 90
+ F+ + LDF + ++K+ R S A A + N + +
Sbjct: 486 HPERMTLFRMVFLDFRFL------EQKI--------RHDSTA-WNASGSILNTLQQLKF- 529
Query: 91 YRYKMRFVYAHFPINASIGNNNKAIEIRNFL---GEKKVR 127
YK ++ + P + N I +FL E +
Sbjct: 530 --YK-PYICDNDPKYERLVN-----AILDFLPKIEENLIC 561
Score = 27.9 bits (61), Expect = 3.0
Identities = 10/75 (13%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 111 NNKAIEI--RNFLGEKKVRKV-DMLDGVTVIRSDKVKDELVLDGNDIELVSRSAALINQK 167
+ + F+ + V DM + S + D +++ + + R L
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKSIL---SKEEIDHIIMSKDAVSGTLR---LFWTL 71
Query: 168 CHVKNKDIRKFLDGI 182
+ + ++KF++ +
Sbjct: 72 LSKQEEMVQKFVEEV 86
>3b34_A Aminopeptidase N; protease, hydrolase, thermolysin, phenylal
membrane, metal-binding, metalloprotease; HET: PHE;
1.30A {Escherichia coli K12} PDB: 2hpt_A* 3b2p_A*
2hpo_A* 3b2x_A* 3b37_A* 3b3b_A* 3ked_A* 3qjx_A 3puu_A
2dq6_A 2dqm_A* 2zxg_A*
Length = 891
Score = 28.0 bits (62), Expect = 2.8
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 135 VTVIRSDKVKDELVLDGNDIELVS 158
+R L L+G D++LVS
Sbjct: 61 SQAVRHGASDAPLRLNGEDLKLVS 84
>1azw_A Proline iminopeptidase; aminopeptidase, serine protease,
xanthomonas campestris; 2.70A {Xanthomonas citri} SCOP:
c.69.1.7
Length = 313
Score = 27.5 bits (60), Expect = 3.0
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 42 NLDFHLMTDEETGKRKLKIDAWF---GSRKTSAAIRTALSHVGNLITGVTKG 90
N + L+ D E + L +D W GS ++ A+ A +H + V +G
Sbjct: 83 NTTWDLVADIERLRTHLGVDRWQVFGGSWGSTLALAYAQTHPQQVTELVLRG 134
>3tbi_A RNA polymerase-associated protein GP33; transcription accessory
protein, transcription; 3.00A {Enterobacteria phage T4}
Length = 115
Score = 26.4 bits (57), Expect = 4.3
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 12 IPDGVKVKINAKVIEVEGPRGKLSRDFKHLNLDFHL 47
IP G+ KI ++ I+ R + R K LDF L
Sbjct: 80 IPSGIIEKIQSEAIDENLLRPSVVRCEKTNTLDFLL 115
>3ebh_A PFA-M1, M1 family aminopeptidase; hydrolase, metal-binding,
metalloprotease, P hydrolase inhibitor; HET: BES; 1.65A
{Plasmodium falciparum} PDB: 3ebg_A* 3ebi_A* 3q43_A*
3q44_A* 3t8v_A*
Length = 889
Score = 26.8 bits (59), Expect = 5.5
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 138 IRSDKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRK 177
I V ++LV DG +++ IN K V+ ++
Sbjct: 40 ISKHNVGEDLVFDGVGLKINE---ISINNKKLVEGEEYTY 76
>3d33_A Domain of unknown function with AN immunoglobulin beta-sandwich
fold; structural genomics, joint center for structural
genomics; HET: MSE; 1.70A {Bacteroides vulgatus atcc
8482}
Length = 108
Score = 25.5 bits (55), Expect = 6.1
Identities = 9/48 (18%), Positives = 17/48 (35%)
Query: 94 KMRFVYAHFPINASIGNNNKAIEIRNFLGEKKVRKVDMLDGVTVIRSD 141
+R + PI ++ + + +R DM G V +D
Sbjct: 21 PIRSAATNCPITVFTDGYLLTLKNASPDRDMTIRITDMAKGGVVYEND 68
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
0.318 0.136 0.379
Gapped
Lambda K H
0.267 0.0492 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,923,746
Number of extensions: 170727
Number of successful extensions: 410
Number of sequences better than 10.0: 1
Number of HSP's gapped: 395
Number of HSP's successfully gapped: 31
Length of query: 194
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 106
Effective length of database: 4,244,745
Effective search space: 449942970
Effective search space used: 449942970
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: 55 (25.5 bits)