RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 026067
(244 letters)
>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 250
Score = 286 bits (733), Expect = 3e-98
Identities = 153/250 (61%), Positives = 183/250 (73%), Gaps = 6/250 (2%)
Query: 1 MATLCTPTCVIFSSLQSSSSSSSFKTLNTG------TTISSSTTPFLGFSVASAKSTSPL 54
MAT+ + + F S Q+ S T T++++ S +++ +
Sbjct: 1 MATMACASSLTFPSAQTQKSFFGTNVKQTPVLSFPRPTVAAAVAVSARKSTSASTKCTEE 60
Query: 55 NTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDAT 114
+ V+ + VP +QRWMF E GPDIWN TWYPK+ADH +DK WYVVDAT
Sbjct: 61 WRQLKEAVKKEFAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDAT 120
Query: 115 DKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRP 174
D ILGR+ASTIAIHIRGKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRP
Sbjct: 121 DLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRP 180
Query: 175 GGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELP 234
GG+KEETFDQLQ RIPERIIEHAVRGMLPKGRLGR LF HLKVYKG HPH+AQQPI+LP
Sbjct: 181 GGLKEETFDQLQKRIPERIIEHAVRGMLPKGRLGRYLFNHLKVYKGAEHPHQAQQPIDLP 240
Query: 235 IRDKRIQKQR 244
+RDKRI+ ++
Sbjct: 241 LRDKRIRVEK 250
>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H
1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J
2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ...
Length = 142
Score = 251 bits (644), Expect = 3e-86
Identities = 79/143 (55%), Positives = 99/143 (69%), Gaps = 3/143 (2%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
T+ K + WYVVDAT K LGRLA+ +A +RGK+ A YTP VD G Y+IV+NA
Sbjct: 3 TFTAKPETV---KRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNA 59
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 212
+KVAV+G KRT K+Y H+G GG+K+ TF+++ R PER+IE AV+GMLPKG LGR +F
Sbjct: 60 DKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLGRAMF 119
Query: 213 THLKVYKGPNHPHEAQQPIELPI 235
LKVY G H H AQQP L I
Sbjct: 120 RKLKVYAGNEHNHAAQQPQVLDI 142
>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N
2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N
2wro_N 2wrr_N 2x9s_N 2x9u_N ...
Length = 140
Score = 248 bits (635), Expect = 6e-85
Identities = 74/143 (51%), Positives = 102/143 (71%), Gaps = 5/143 (3%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
T+ PK + W ++DA K LGRLA+ IA +RGK+ +TP+V MG +V+VVNA
Sbjct: 3 TYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNA 57
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 212
+K+ V+GKK QKIY R+SG PGG+K+ +++ PER++EHAV+GMLPKG LGR LF
Sbjct: 58 DKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLGRRLF 117
Query: 213 THLKVYKGPNHPHEAQQPIELPI 235
LKVY GP+HPH+AQ+P +L +
Sbjct: 118 KRLKVYAGPDHPHQAQRPEKLEV 140
>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A
{Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N
Length = 163
Score = 248 bits (635), Expect = 1e-84
Identities = 74/148 (50%), Positives = 102/148 (68%), Gaps = 5/148 (3%)
Query: 88 DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 147
T+ PK + W ++DA K LGRLA+ IA +RGK+ +TP+V MG +V
Sbjct: 21 RALVKTYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFV 75
Query: 148 IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRL 207
+VVNA+K+ V+GKK QKIY R+SG PGG+K+ +++ PER++EHAV+GMLPKG L
Sbjct: 76 VVVNADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPL 135
Query: 208 GRELFTHLKVYKGPNHPHEAQQPIELPI 235
GR LF LKVY GP+HPH+AQ+P +L +
Sbjct: 136 GRRLFKRLKVYAGPDHPHQAQRPEKLEV 163
>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H*
1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G*
3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K
Length = 174
Score = 244 bits (624), Expect = 8e-83
Identities = 67/133 (50%), Positives = 91/133 (68%)
Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
++ W VVDA+ LGRLA+ IA IRGK+ +TP++ G +V+V+NA +VA++GKK
Sbjct: 38 EQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDD 97
Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHP 224
K+Y R++G GG+K ET + + PER+IEHAV GMLPKGR GR + T LKVY G HP
Sbjct: 98 KVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHP 157
Query: 225 HEAQQPIELPIRD 237
H AQ+P L +
Sbjct: 158 HSAQKPQVLKTQP 170
>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial;
mitochondrial ribosome, large ribosomal subunit,
ribosomal R ribosome; 12.10A {Bos taurus}
Length = 148
Score = 240 bits (614), Expect = 1e-81
Identities = 40/144 (27%), Positives = 71/144 (49%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
++ + WY++D + G+LA+ +I ++G + Y D G +V+++N
Sbjct: 3 SFSRAPQQWATFARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNT 62
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 212
+A SG K QK+Y H+G PGG ++ T QL R P I++ A+ GMLPK R +
Sbjct: 63 RHIAFSGNKWEQKVYSSHTGYPGGFRQVTAAQLHLRDPVAIVKLAIYGMLPKNLHRRTMM 122
Query: 213 THLKVYKGPNHPHEAQQPIELPIR 236
L ++ P + + + +
Sbjct: 123 ERLHLFPDEYIPEDILKNLVEELP 146
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly,
ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1
Length = 142
Score = 183 bits (466), Expect = 3e-59
Identities = 33/137 (24%), Positives = 54/137 (39%), Gaps = 13/137 (9%)
Query: 109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYR 168
+++A ILGRLAS +A + G V++VNAEK ++G +
Sbjct: 2 RIINADGLILGRLASRVAKMLLE------------GEEVVIVNAEKAVITGNREVIFSKY 49
Query: 169 RHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNHPHEA 227
+ + + + I+ +RGMLP K GR+ F LKVY G +
Sbjct: 50 KQRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQD 109
Query: 228 QQPIELPIRDKRIQKQR 244
+Q + +
Sbjct: 110 KQLETIVEAHVSRLSRP 126
>1vq8_J 50S ribosomal protein L13P; 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: c.21.1.1 PDB: 1giy_M
1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I*
1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K*
1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ...
Length = 145
Score = 182 bits (463), Expect = 8e-59
Identities = 35/140 (25%), Positives = 55/140 (39%), Gaps = 17/140 (12%)
Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
+VDA D I+GR+AS +A G V VVNAE+ ++G++
Sbjct: 5 EFDADVIVDARDCIMGRVASQVAEQ------------ALDGETVAVVNAERAVITGREEQ 52
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 222
G + P+ I + +RGMLP K + GRE F ++VY G
Sbjct: 53 IVEKYEKRVDIGNDNGY----FYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNP 108
Query: 223 HPHEAQQPIELPIRDKRIQK 242
+ + + + K
Sbjct: 109 YDEDGEVLDGTSLDRLSNIK 128
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 157 bits (398), Expect = 1e-48
Identities = 37/138 (26%), Positives = 64/138 (46%), Gaps = 15/138 (10%)
Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 169
V+D ++GRLAS +A + G ++VV AE++ +SG+ K+
Sbjct: 2 VIDGKGHLVGRLASVVAKQLL------------NGQKIVVVRAEELNISGEFFRNKLKYH 49
Query: 170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNHPHEAQ 228
R +T R P RI A+RGM+ K G+ LKV++G P++ +
Sbjct: 50 DFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKK 109
Query: 229 QPIELP--IRDKRIQKQR 244
+ + +P +R R++ R
Sbjct: 110 KRVVVPQALRVLRLKPGR 127
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_I 4a1c_I 4a1e_I
Length = 198
Score = 155 bits (393), Expect = 1e-47
Identities = 33/131 (25%), Positives = 50/131 (38%), Gaps = 13/131 (9%)
Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
V+DA +LGRLAS +A + G ++VV E + +SG
Sbjct: 2 FDKLVVIDAKGHLLGRLASYVAKELL------------SGQRIVVVRTEAINISGSLFRN 49
Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNH 223
++ R P RI AVRGMLP K G LK+++G
Sbjct: 50 RVKFSEFLNKWMNHNPRRGVQHFRAPSRIFWRAVRGMLPHKTPKGAAALERLKIFEGIPT 109
Query: 224 PHEAQQPIELP 234
P++ + +
Sbjct: 110 PYDRVKKQVVV 120
>3izc_K 60S ribosomal protein RPL16 (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_K
3o58_P 3o5h_P 3u5e_O 3u5i_O
Length = 199
Score = 155 bits (393), Expect = 1e-47
Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 13/132 (9%)
Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
S + V+D ++GRLAS +A + G ++VV AE++ +SG+
Sbjct: 2 SVEPVVVIDGKGHLVGRLASVVAKQLLN------------GQKIVVVRAEELNISGEFFR 49
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 222
K+ R +T R P RI A+RGM+ K G+ LKV++G
Sbjct: 50 NKLKYHDFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIP 109
Query: 223 HPHEAQQPIELP 234
P++ ++ + +P
Sbjct: 110 PPYDKKKRVVVP 121
>3iz5_K 60S ribosomal protein L13A (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_K
Length = 206
Score = 154 bits (391), Expect = 3e-47
Identities = 36/131 (27%), Positives = 57/131 (43%), Gaps = 13/131 (9%)
Query: 105 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 164
VVDA +LGRLAS +A + G V+VV E++ +SG Q
Sbjct: 8 CAKRVVVDARHHMLGRLASIVAKELL------------NGQRVVVVRCEEICMSGGLVRQ 55
Query: 165 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNH 223
K+ R + + + R P +I+ +RGM+P K G LK Y+G
Sbjct: 56 KMKYLRFLRKRMNTKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALARLKAYEGVPP 115
Query: 224 PHEAQQPIELP 234
P++ + + +P
Sbjct: 116 PYDRTKRMVIP 126
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 203
Score = 147 bits (372), Expect = 2e-44
Identities = 36/138 (26%), Positives = 59/138 (42%), Gaps = 13/138 (9%)
Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
++ V+D +LGRLA+ +A + +G V+VV E + +SG
Sbjct: 2 AEVQVLVLDGRGHLLGRLAAIVAKQVL------------LGRKVVVVRCEGINISGNFYR 49
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 222
K+ R + R P RI VRGMLP K + G+ LKV+ G
Sbjct: 50 NKLNYLAFLRKRMNTNPSRGPYDFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIP 109
Query: 223 HPHEAQQPIELPIRDKRI 240
P++ ++ + +P K +
Sbjct: 110 PPYDKKKRMVVPAALKVV 127
>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 = 38.9 bits (90), Expect = 0.001
Identities = 47/274 (17%), Positives = 78/274 (28%), Gaps = 93/274 (33%)
Query: 3 TLCTPTCVIFSSLQSSSSSSSF-KTLNTGTT-------ISSS---TTPFLGFSVASAKST 51
L PT F + Q F K L T ++ FLG+ V+S
Sbjct: 19 VLLVPTASFFIASQLQEQ---FNKILPEPTEGFAADDEPTTPAELVGKFLGY-VSSLVEP 74
Query: 52 SPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVV 111
S + L+L FE + G DI H+ +
Sbjct: 75 SKVGQFDQV-------LNLCLTE----FENCYLEGNDI-------------HA-----LA 105
Query: 112 ----DATDKILGRLASTI-----AIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKR 162
D L + I A + + + S + A G +
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS-------ALFRA---VGEGNAQ 155
Query: 163 TQKIYRRHSGRPG-GMKEETFDQLQHR------IPERIIEHAVRGMLPKGRLGRELFTHL 215
I+ G G G ++ F++L+ + +I+ + L L R
Sbjct: 156 LVAIF----G--GQGNTDDYFEELRDLYQTYHVLVGDLIKFS-AETL--SELIRTTLDAE 206
Query: 216 KVY-KG-------------PNHPHEAQQPIELPI 235
KV+ +G P+ + PI P+
Sbjct: 207 KVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL 240
Score = 35.8 bits (82), Expect = 0.013
Identities = 31/133 (23%), Positives = 39/133 (29%), Gaps = 45/133 (33%)
Query: 103 HSDKTWYVVDATDKILGRL--------ASTIAI---HIR-GKNLATYTPS-----VDMGA 145
HS +V A+D I L A I I G +L + S VD
Sbjct: 428 HSH---LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC-- 482
Query: 146 YVIV---VNAEKVAVSGKKRTQKIYRRHS---GRPGGMKEETFDQLQHRIPE----RIIE 195
I+ V E T H G PGG L HR + R+I
Sbjct: 483 --IIRLPVKWETTTQFKA--T------HILDFG-PGGAS--GLGVLTHRNKDGTGVRVIV 529
Query: 196 HAVRGMLPKGRLG 208
+ P G
Sbjct: 530 AGTLDINPDDDYG 542
Score = 33.5 bits (76), Expect = 0.076
Identities = 41/256 (16%), Positives = 74/256 (28%), Gaps = 85/256 (33%)
Query: 10 VIFSSLQ--SSSSSSSFKTLNTGTTISS-----STTP---FLGFSVASAKSTSPLNTKRS 59
+L ++ + K G I S TP +L S + PL
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL----LSIPISCPLIGVIQ 245
Query: 60 FK--VRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTW---YVVDAT 114
V + L P R + + + + A +D +W + +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGL------VTAVAIAETD-SWESFF--VSV 296
Query: 115 DKILGRLASTIAIHI--RGKNLATYTPSVDMGAYVI---VVNAEKV-----AVSGKKRTQ 164
K + T+ I R P+ + ++ + N E V ++S + Q
Sbjct: 297 RKAI-----TVLFFIGVRCYE---AYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ 348
Query: 165 ----------------KIY------RRH---SGRPG----------GMKEETFDQLQHRI 189
++ ++ SG P K + Q RI
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS-GLDQSRI 407
Query: 190 P--ERIIEHAVRGMLP 203
P ER ++ + R LP
Sbjct: 408 PFSERKLKFSNRF-LP 422
>3ef2_A Agglutinin, lectin; beta-trefoil, calcium-binding,
carbohydrate-binding, sugar-binding, sugar binding
protein; HET: FUC GAL GLA; 1.80A {Marasmius oreades}
PDB: 2iho_A*
Length = 293
Score = 28.9 bits (64), Expect = 1.5
Identities = 4/42 (9%), Positives = 10/42 (23%)
Query: 73 DNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDAT 114
+Q+W F + V+ + +
Sbjct: 147 PHQKWYFNRMSVSSAEAQAAIARNPHIHGTYRGYILDGEYLV 188
>2v9v_A Selenocysteine-specific elongation factor; transcription, protein
conformational change, transcription elongation factor
SELB; 1.10A {Moorella thermoacetica} SCOP: a.4.5.35
a.4.5.35
Length = 135
Score = 28.0 bits (62), Expect = 1.5
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 167 YRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRE 210
+ R+ RPG +EE + R+P R+ + + +GRL
Sbjct: 79 HSRYPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQLA 122
>1t9f_A Protein 1D10; structural genomics, PSI, protein structure
initiative, southeast collaboratory for structural
genomics, secsg; 2.00A {Caenorhabditis elegans} SCOP:
b.42.6.1
Length = 187
Score = 27.6 bits (61), Expect = 2.9
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 76 RWMFEQSEVNGPDIW--NNTWYPKAADHRHSDKT 107
R + Q EV G D + W A+ +
Sbjct: 152 RPIHGQREVVGTDSITGGSAWK--VAEGIYIKHQ 183
>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 = 26.8 bits (58), Expect = 4.6
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 8/33 (24%)
Query: 204 KGRLGRELFTHLKVYKGPNHPHEAQQPIELPIR 236
K L ++L LK+Y A P L I+
Sbjct: 19 KQAL-KKLQASLKLYA----DDSA--P-ALAIK 43
>1t3q_C Quinoline 2-oxidoreductase medium subunit; QOR, molybdenum, MCD;
HET: FAD MCN; 1.80A {Pseudomonas putida} SCOP: d.87.2.1
d.145.1.3
Length = 288
Score = 26.8 bits (60), Expect = 6.7
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 6/52 (11%)
Query: 117 ILGRLASTIA-IHIR-----GKNLATYTPSVDMGAYVIVVNAEKVAVSGKKR 162
IL ++ + +A +R G +LA +M + + A S
Sbjct: 92 ILPKVLAHVAHQAVRNRGTLGGSLAHADAGAEMPFLMATLGATMYIASSAGV 143
>3v64_C Agrin; beta propeller, laminin-G, signaling, protein binding; HET:
NAG; 2.85A {Rattus norvegicus}
Length = 349
Score = 26.8 bits (58), Expect = 7.9
Identities = 16/86 (18%), Positives = 25/86 (29%), Gaps = 18/86 (20%)
Query: 54 LNTKRSFKVRCCQNLSLVPDNQRWMFEQSEV-----NGPDIWNNTWY------------- 95
N++ +F+ C L PD + E N DI +
Sbjct: 15 TNSEGAFQCWCEAGYELRPDRRSCKALGPEPVLLFANRIDIRQVLPHRSEYTLLLNNLEN 74
Query: 96 PKAADHRHSDKTWYVVDATDKILGRL 121
A D H + + D T + R
Sbjct: 75 AIALDFHHRRELVFWSDVTLDRILRA 100
>1lva_A Selenocysteine-specific elongation factor; winged-helix,
translation; 2.12A {Moorella thermoacetica} SCOP:
a.4.5.35 a.4.5.35 a.4.5.35 a.4.5.35 PDB: 2uwm_A 2ply_A
1wsu_A
Length = 258
Score = 26.6 bits (58), Expect = 8.4
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRE 210
++ + R+ RPG +EE + R+P R+ + + +GRL
Sbjct: 76 EEFHSRYPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQLA 122
>3czp_A Putative polyphosphate kinase 2; PPK2, MCSG, PSI-2, structural
protein structure initiative, midwest center for
structural genomics; HET: MSE; 2.00A {Pseudomonas
aeruginosa PAO1}
Length = 500
Score = 26.5 bits (59), Expect = 9.5
Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 8/43 (18%)
Query: 88 DIWNNT-W--YPKAADH--RHSDKT---WYVVDATDKILGRLA 122
D + + + + R + + WYVV+ D+ L
Sbjct: 182 DWKQSEVYDRFVHYGERVLRRTSRDYAPWYVVEGADERYRALT 224
>3mal_A Stromal cell-derived factor 2-like protein; trefoil fold, MIR
motifs, unfolded protein response, putativ binding
protein, plant protein; 1.95A {Arabidopsis thaliana}
Length = 199
Score = 26.0 bits (57), Expect = 9.6
Identities = 9/31 (29%), Positives = 12/31 (38%), Gaps = 6/31 (19%)
Query: 76 RWMFEQSEVNG---PDIWNNTWYPKAADHRH 103
R Q EV G +N W AA+ +
Sbjct: 164 RIAGGQQEVCGIREKKA-DNIWL--AAEGVY 191
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
0.317 0.131 0.393
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,629,086
Number of extensions: 213559
Number of successful extensions: 552
Number of sequences better than 10.0: 1
Number of HSP's gapped: 537
Number of HSP's successfully gapped: 28
Length of query: 244
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 153
Effective length of database: 4,160,982
Effective search space: 636630246
Effective search space used: 636630246
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: 56 (25.7 bits)