RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 027797
(218 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 = 256 bits (655), Expect = 6e-87
Identities = 132/164 (80%), Positives = 148/164 (90%)
Query: 55 NTKRSFKDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPS 114
+ + DIWN TWYPK+ADH +DK WYVVDATD ILGR+ASTIAIHIRGKNLA+YTPS
Sbjct: 87 LEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPS 146
Query: 115 VDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRG 174
VDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRPGG+KEETFDQLQ RIPERIIEHAVRG
Sbjct: 147 VDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIPERIIEHAVRG 206
Query: 175 MLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 218
MLPKGRLGR LF HLKVYKG HPH+AQQPI+LP+RDKRI+ ++
Sbjct: 207 MLPKGRLGRYLFNHLKVYKGAEHPHQAQQPIDLPLRDKRIRVEK 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 = 247 bits (634), Expect = 3e-85
Identities = 79/143 (55%), Positives = 99/143 (69%), Gaps = 3/143 (2%)
Query: 67 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 126
T+ K + WYVVDAT K LGRLA+ +A +RGK+ A YTP VD G Y+IV+NA
Sbjct: 3 TFTAKPETV---KRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNA 59
Query: 127 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 186
+KVAV+G KRT K+Y H+G GG+K+ TF+++ R PER+IE AV+GMLPKG LGR +F
Sbjct: 60 DKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLGRAMF 119
Query: 187 THLKVYKGPNHPHEAQQPIELPI 209
LKVY G H H AQQP L I
Sbjct: 120 RKLKVYAGNEHNHAAQQPQVLDI 142
>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 = 247 bits (634), Expect = 7e-85
Identities = 75/158 (47%), Positives = 106/158 (67%), Gaps = 5/158 (3%)
Query: 52 SPLNTKRSFKDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATY 111
P ++ + T+ PK + W ++DA K LGRLA+ IA +RGK+ +
Sbjct: 11 GPPIPRQEQRRALVKTYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDW 65
Query: 112 TPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHA 171
TP+V MG +V+VVNA+K+ V+GKK QKIY R+SG PGG+K+ +++ PER++EHA
Sbjct: 66 TPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHA 125
Query: 172 VRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI 209
V+GMLPKG LGR LF LKVY GP+HPH+AQ+P +L +
Sbjct: 126 VKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLEV 163
>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 = 244 bits (625), Expect = 6e-84
Identities = 74/143 (51%), Positives = 102/143 (71%), Gaps = 5/143 (3%)
Query: 67 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 126
T+ PK + W ++DA K LGRLA+ IA +RGK+ +TP+V MG +V+VVNA
Sbjct: 3 TYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNA 57
Query: 127 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 186
+K+ V+GKK QKIY R+SG PGG+K+ +++ PER++EHAV+GMLPKG LGR LF
Sbjct: 58 DKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLGRRLF 117
Query: 187 THLKVYKGPNHPHEAQQPIELPI 209
LKVY GP+HPH+AQ+P +L +
Sbjct: 118 KRLKVYAGPDHPHQAQRPEKLEV 140
>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 = 243 bits (622), Expect = 7e-83
Identities = 75/175 (42%), Positives = 102/175 (58%), Gaps = 10/175 (5%)
Query: 39 PFLGFSVASAKSTSPLNTK--RSFKDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLA 96
P S +SP + RSFK + ++ W VVDA+ LGRLA
Sbjct: 4 PDTDVSPPRGGPSSPAKSPLLRSFK-----VKTYIPKN---DEQNWVVVDASGVPLGRLA 55
Query: 97 STIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETF 156
+ IA IRGK+ +TP++ G +V+V+NA +VA++GKK K+Y R++G GG+K ET
Sbjct: 56 TLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYTGYQGGLKTETA 115
Query: 157 DQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRD 211
+ + PER+IEHAV GMLPKGR GR + T LKVY G HPH AQ+P L +
Sbjct: 116 REALSKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSAQKPQVLKTQP 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 = 237 bits (606), Expect = 8e-81
Identities = 40/144 (27%), Positives = 71/144 (49%)
Query: 67 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 126
++ + WY++D + G+LA+ +I ++G + Y D G +V+++N
Sbjct: 3 SFSRAPQQWATFARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNT 62
Query: 127 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 186
+A SG K QK+Y H+G PGG ++ T QL R P I++ A+ GMLPK R +
Sbjct: 63 RHIAFSGNKWEQKVYSSHTGYPGGFRQVTAAQLHLRDPVAIVKLAIYGMLPKNLHRRTMM 122
Query: 187 THLKVYKGPNHPHEAQQPIELPIR 210
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 = 180 bits (459), Expect = 1e-58
Identities = 33/137 (24%), Positives = 54/137 (39%), Gaps = 13/137 (9%)
Query: 83 YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYR 142
+++A ILGRLAS +A + G V++VNAEK ++G +
Sbjct: 2 RIINADGLILGRLASRVAKMLLE------------GEEVVIVNAEKAVITGNREVIFSKY 49
Query: 143 RHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNHPHEA 201
+ + + + I+ +RGMLP K GR+ F LKVY G +
Sbjct: 50 KQRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQD 109
Query: 202 QQPIELPIRDKRIQKQR 218
+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 = 179 bits (457), Expect = 3e-58
Identities = 35/140 (25%), Positives = 55/140 (39%), Gaps = 17/140 (12%)
Query: 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 137
+VDA D I+GR+AS +A G V VVNAE+ ++G++
Sbjct: 5 EFDADVIVDARDCIMGRVASQVAEQ------------ALDGETVAVVNAERAVITGREEQ 52
Query: 138 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 196
G + P+ I + +RGMLP K + GRE F ++VY G
Sbjct: 53 IVEKYEKRVDIGNDNGY----FYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNP 108
Query: 197 HPHEAQQPIELPIRDKRIQK 216
+ + + + 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 = 153 bits (389), Expect = 1e-47
Identities = 37/138 (26%), Positives = 64/138 (46%), Gaps = 15/138 (10%)
Query: 84 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 143
V+D ++GRLAS +A + G ++VV AE++ +SG+ K+
Sbjct: 2 VIDGKGHLVGRLASVVAKQLL------------NGQKIVVVRAEELNISGEFFRNKLKYH 49
Query: 144 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNHPHEAQ 202
R +T R P RI A+RGM+ K G+ LKV++G P++ +
Sbjct: 50 DFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKK 109
Query: 203 QPIELP--IRDKRIQKQR 218
+ + +P +R R++ R
Sbjct: 110 KRVVVPQALRVLRLKPGR 127
>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 = 152 bits (386), Expect = 7e-47
Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 13/132 (9%)
Query: 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 137
S + V+D ++GRLAS +A + G ++VV AE++ +SG+
Sbjct: 2 SVEPVVVIDGKGHLVGRLASVVAKQLLN------------GQKIVVVRAEELNISGEFFR 49
Query: 138 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 196
K+ R +T R P RI A+RGM+ K G+ LKV++G
Sbjct: 50 NKLKYHDFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIP 109
Query: 197 HPHEAQQPIELP 208
P++ ++ + +P
Sbjct: 110 PPYDKKKRVVVP 121
>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 = 152 bits (385), Expect = 7e-47
Identities = 33/131 (25%), Positives = 50/131 (38%), Gaps = 13/131 (9%)
Query: 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 138
V+DA +LGRLAS +A + G ++VV E + +SG
Sbjct: 2 FDKLVVIDAKGHLLGRLASYVAKELL------------SGQRIVVVRTEAINISGSLFRN 49
Query: 139 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNH 197
++ R P RI AVRGMLP K G LK+++G
Sbjct: 50 RVKFSEFLNKWMNHNPRRGVQHFRAPSRIFWRAVRGMLPHKTPKGAAALERLKIFEGIPT 109
Query: 198 PHEAQQPIELP 208
P++ + +
Sbjct: 110 PYDRVKKQVVV 120
>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 = 151 bits (383), Expect = 2e-46
Identities = 36/131 (27%), Positives = 57/131 (43%), Gaps = 13/131 (9%)
Query: 79 DKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQ 138
VVDA +LGRLAS +A + G V+VV E++ +SG Q
Sbjct: 8 CAKRVVVDARHHMLGRLASIVAKELL------------NGQRVVVVRCEEICMSGGLVRQ 55
Query: 139 KIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPNH 197
K+ R + + + R P +I+ +RGM+P K G LK Y+G
Sbjct: 56 KMKYLRFLRKRMNTKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALARLKAYEGVPP 115
Query: 198 PHEAQQPIELP 208
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 = 144 bits (365), Expect = 8e-44
Identities = 36/138 (26%), Positives = 59/138 (42%), Gaps = 13/138 (9%)
Query: 78 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 137
++ V+D +LGRLA+ +A + +G V+VV E + +SG
Sbjct: 2 AEVQVLVLDGRGHLLGRLAAIVAKQVL------------LGRKVVVVRCEGINISGNFYR 49
Query: 138 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLP-KGRLGRELFTHLKVYKGPN 196
K+ R + R P RI VRGMLP K + G+ LKV+ G
Sbjct: 50 NKLNYLAFLRKRMNTNPSRGPYDFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIP 109
Query: 197 HPHEAQQPIELPIRDKRI 214
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 = 35.8 bits (82), Expect = 0.010
Identities = 31/133 (23%), Positives = 39/133 (29%), Gaps = 45/133 (33%)
Query: 77 HSDKTWYVVDATDKILGRL--------ASTIAI---HIR-GKNLATYTPS-----VDMGA 119
HS +V A+D I L A I I G +L + S VD
Sbjct: 428 HSH---LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC-- 482
Query: 120 YVIV---VNAEKVAVSGKKRTQKIYRRHS---GRPGGMKEETFDQLQHRIPE----RIIE 169
I+ V E T H G PGG L HR + R+I
Sbjct: 483 --IIRLPVKWETTTQFKA--T------HILDFG-PGGAS--GLGVLTHRNKDGTGVRVIV 529
Query: 170 HAVRGMLPKGRLG 182
+ P G
Sbjct: 530 AGTLDINPDDDYG 542
Score = 34.3 bits (78), Expect = 0.031
Identities = 42/263 (15%), Positives = 73/263 (27%), Gaps = 97/263 (36%)
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 SPLNT------------KRSF---KDIWNNTWYPKAADHRHSDKTWYVV----DATDKIL 92
S + + + DI H+ + D L
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDI-------------HA-----LAAKLLQENDTTL 116
Query: 93 GRLASTI-----AIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGR 147
+ I A + + + S + A G + I+ G
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNS-------ALFRA---VGEGNAQLVAIF----G- 161
Query: 148 PG-GMKEETFDQLQHR------IPERIIEHAVRGMLPKGRLGRELFTHLKVY-KG----- 194
G G ++ F++L+ + +I+ + L L R KV+ +G
Sbjct: 162 -GQGNTDDYFEELRDLYQTYHVLVGDLIKFS-AETL--SELIRTTLDAEKVFTQGLNILE 217
Query: 195 --------PNHPHEAQQPIELPI 209
P+ + PI P+
Sbjct: 218 WLENPSNTPDKDYLLSIPISCPL 240
Score = 31.2 bits (70), Expect = 0.29
Identities = 30/178 (16%), Positives = 57/178 (32%), Gaps = 55/178 (30%)
Query: 33 ISSSTTPFLGFSVASAKSTSPLNTKRSFKDIWNNT-----W--------YP--------- 70
+ +T G A A + + + SF + YP
Sbjct: 267 LKGATGHSQGLVTAVAIAETD--SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Query: 71 -KAADHRHSDKTW--YVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAE 127
+ ++ + + + T + + ++ N ++ P+ + +VN
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQD-------YVNKTN--SHLPA-GKQVEISLVNGA 374
Query: 128 K--VAVSGKKRT----QKIYRRHSGRPGGMKEETFDQLQHRIP--ERIIEHAVRGMLP 177
K V VSG ++ R+ G DQ RIP ER ++ + R LP
Sbjct: 375 KNLV-VSGPPQSLYGLNLTLRKAKAPSG------LDQ--SRIPFSERKLKFSNRF-LP 422
Score = 30.0 bits (67), Expect = 0.63
Identities = 28/163 (17%), Positives = 45/163 (27%), Gaps = 75/163 (46%)
Query: 51 TSPLNTKRSFKDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIH---IRGKN 107
TS + +D+WN +A +H + ++D I+ + IH +GK
Sbjct: 1638 TSK-----AAQDVWN-----RADNHFKDTYGFSILD----IVINNPVNLTIHFGGEKGKR 1683
Query: 108 LA------TYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQH 161
+ + VD GK +T+KI F ++
Sbjct: 1684 IRENYSAMIFETIVD----------------GKLKTEKI---------------FKEINE 1712
Query: 162 RIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQP 204
KG L FT QP
Sbjct: 1713 HSTSYTFRS------EKGLLSATQFT---------------QP 1734
>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 = 27.6 bits (61), Expect = 1.6
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 141 YRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRE 184
+ R+ RPG +EE + R+P R+ + + +GRL
Sbjct: 79 HSRYPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQLA 122
>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 = 4.5
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 8/33 (24%)
Query: 178 KGRLGRELFTHLKVYKGPNHPHEAQQPIELPIR 210
K L ++L LK+Y A P L I+
Sbjct: 19 KQAL-KKLQASLKLYA----DDSA--P-ALAIK 43
>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 = 27.3 bits (61), Expect = 4.9
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 57 KRSFKDIWNNT-W--YPKAADH--RHSDKT---WYVVDATDKILGRLA 96
K S D + + + + R + + WYVV+ D+ L
Sbjct: 177 KLSPLDWKQSEVYDRFVHYGERVLRRTSRDYAPWYVVEGADERYRALT 224
>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 = 26.4 bits (59), Expect = 7.8
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 6/52 (11%)
Query: 91 ILGRLASTIA-IHIR-----GKNLATYTPSVDMGAYVIVVNAEKVAVSGKKR 136
IL ++ + +A +R G +LA +M + + A S
Sbjct: 92 ILPKVLAHVAHQAVRNRGTLGGSLAHADAGAEMPFLMATLGATMYIASSAGV 143
>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 = 26.2 bits (57), Expect = 8.3
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 138 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRE 184
++ + R+ RPG +EE + R+P R+ + + +GRL
Sbjct: 76 EEFHSRYPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQLA 122
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 0.130 0.385
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,258,092
Number of extensions: 192986
Number of successful extensions: 484
Number of sequences better than 10.0: 1
Number of HSP's gapped: 469
Number of HSP's successfully gapped: 28
Length of query: 218
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 128
Effective length of database: 4,188,903
Effective search space: 536179584
Effective search space used: 536179584
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 (25.2 bits)