RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 030330
(179 letters)
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly,
ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1
Length = 142
Score = 209 bits (533), Expect = 2e-70
Identities = 50/143 (34%), Positives = 74/143 (51%), Gaps = 2/143 (1%)
Query: 12 VVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKP 71
+++A +LGRLAS VAK LL G++VV V E+ ++G KY + R T P
Sbjct: 2 RIINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNP 61
Query: 72 SHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKV 131
GP + + +I RT+RGM+P KT RG A RLK Y G+P + + I +A
Sbjct: 62 RRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVS 121
Query: 132 LRLQKGHKYCLLGRLASEVGWNY 154
+ KY +G +A +G +
Sbjct: 122 RLSRP--KYVTVGEVAKFLGGKF 142
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 197 bits (502), Expect = 2e-65
Identities = 82/148 (55%), Positives = 108/148 (72%)
Query: 12 VVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKP 71
VV+D + H++GRLAS+VAK+LLNGQK+V VR EE+ +SG R K+KY FLRK
Sbjct: 1 VVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNK 60
Query: 72 SHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKV 131
+ GP HFRAP++IF++ +RGM+ HKT RG AAL RLK +EG+P PYDK KR+V+P AL+V
Sbjct: 61 TRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKKKRVVVPQALRV 120
Query: 132 LRLQKGHKYCLLGRLASEVGWNYYDTIR 159
LRL+ G KY LG+L++ VGW
Sbjct: 121 LRLKPGRKYTTLGKLSTSVGWKAAAAAA 148
>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 = 194 bits (494), Expect = 8e-64
Identities = 142/159 (89%), Positives = 150/159 (94%)
Query: 1 MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYM 60
MVSGSG+CAKRVVVDARHHMLGRLASIVAKELLNGQ+VV VRCEEICMSGGLVRQKMKY+
Sbjct: 1 MVSGSGVCAKRVVVDARHHMLGRLASIVAKELLNGQRVVVVRCEEICMSGGLVRQKMKYL 60
Query: 61 RFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKV 120
RFLRKRMNTKPSHGPIHFRAPAKI WRT+RGMIPHKT RG AALARLKAYEGVP PYD+
Sbjct: 61 RFLRKRMNTKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALARLKAYEGVPPPYDRT 120
Query: 121 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
KRMVIPDALKVLRLQ GH+YCLLG+L+ EVGWNY DTIR
Sbjct: 121 KRMVIPDALKVLRLQPGHRYCLLGQLSKEVGWNYADTIR 159
>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 = 190 bits (486), Expect = 2e-63
Identities = 48/145 (33%), Positives = 77/145 (53%), Gaps = 9/145 (6%)
Query: 10 KRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNT 69
V+VDAR ++GR+AS VA++ L+G+ V V E ++G + KY KR++
Sbjct: 8 ADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKY----EKRVDI 63
Query: 70 KPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDAL 129
+G + + P IF RT+RGM+PHK +RG A ++ Y G PYD+ ++ +L
Sbjct: 64 GNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLG--NPYDEDGEVLDGTSL 121
Query: 130 KVLRLQKGHKYCLLGRLASEVGWNY 154
L K+ LG ++ +G N
Sbjct: 122 DRL---SNIKFVTLGEISETLGANK 143
>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 = 191 bits (486), Expect = 1e-62
Identities = 86/153 (56%), Positives = 109/153 (71%)
Query: 7 ICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKR 66
+ K VV+DA+ H+LGRLAS VAKELL+GQ++V VR E I +SG L R ++K+ FL K
Sbjct: 1 MFDKLVVIDAKGHLLGRLASYVAKELLSGQRIVVVRTEAINISGSLFRNRVKFSEFLNKW 60
Query: 67 MNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIP 126
MN P G HFRAP++IFWR VRGM+PHKT +GAAAL RLK +EG+P PYD+VK+ V+
Sbjct: 61 MNHNPRRGVQHFRAPSRIFWRAVRGMLPHKTPKGAAALERLKIFEGIPTPYDRVKKQVVV 120
Query: 127 DALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
DALKV RL+ C LG L++ VGW I
Sbjct: 121 DALKVQRLRNSRPVCKLGDLSASVGWGKQTLIE 153
>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 = 187 bits (475), Expect = 4e-61
Identities = 84/150 (56%), Positives = 111/150 (74%)
Query: 10 KRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNT 69
VV+D + H++GRLAS+VAK+LLNGQK+V VR EE+ +SG R K+KY FLRK
Sbjct: 5 PVVVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAF 64
Query: 70 KPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDAL 129
+ GP HFRAP++IF++ +RGM+ HKT RG AAL RLK +EG+P PYDK KR+V+P AL
Sbjct: 65 NKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKKKRVVVPQAL 124
Query: 130 KVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
+VLRL+ G KY LG+L++ VGW Y D +
Sbjct: 125 RVLRLKPGRKYTTLGKLSTSVGWKYEDVVA 154
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 203
Score = 176 bits (448), Expect = 6e-57
Identities = 94/150 (62%), Positives = 115/150 (76%)
Query: 10 KRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNT 69
+ +V+D R H+LGRLA+IVAK++L G+KVV VRCE I +SG R K+ Y+ FLRKRMNT
Sbjct: 5 QVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLNYLAFLRKRMNT 64
Query: 70 KPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDAL 129
PS GP FRAP++IFWRTVRGM+PHKTKRG AAL RLK ++G+P PYDK KRMV+P AL
Sbjct: 65 NPSRGPYDFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPPYDKKKRMVVPAAL 124
Query: 130 KVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
KV+RL+ K+ LGRLA EVGW Y
Sbjct: 125 KVVRLKPTRKFAYLGRLAHEVGWKYQAVTA 154
>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 = 53.4 bits (129), Expect = 1e-09
Identities = 25/119 (21%), Positives = 41/119 (34%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
++D + G+LA++ + L G VV + I SG QK+ Y
Sbjct: 19 YLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWEQKV-Y 77
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
R+ + +H R P I + GM+P K + RL +
Sbjct: 78 SSHTGYPGGFRQV-----TAAQLHLRDPVAIVKLAIYGMLP-KNLHRRTMMERLHLFPD 130
>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 = 51.0 bits (123), Expect = 6e-09
Identities = 28/119 (23%), Positives = 50/119 (42%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
VVDA LGRLA+ +A+ L G ++ + +++ ++G K+ Y
Sbjct: 16 YVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKV-Y 74
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
+++ + + R P ++ V+GM+P K G A +LK Y G
Sbjct: 75 YHHTGHIGGIKQA-----TFEEMIARRPERVIEIAVKGMLP-KGPLGRAMFRKLKVYAG 127
>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 = 51.0 bits (123), Expect = 7e-09
Identities = 34/119 (28%), Positives = 51/119 (42%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
V++DA LGRLA+ +A L G VV V ++I ++G + QK+ Y
Sbjct: 14 VLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKI-Y 72
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
R+ L+K + P ++ V+GM+P K G RLK Y G
Sbjct: 73 TRYSGYPGGLKKI-----PLEKMLATHPERVLEHAVKGMLP-KGPLGRRLFKRLKVYAG 125
>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 = 51.1 bits (123), Expect = 1e-08
Identities = 34/119 (28%), Positives = 51/119 (42%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
V++DA LGRLA+ +A L G VV V ++I ++G + QK+ Y
Sbjct: 37 VLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKI-Y 95
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
R+ L+K + P ++ V+GM+P K G RLK Y G
Sbjct: 96 TRYSGYPGGLKKI-----PLEKMLATHPERVLEHAVKGMLP-KGPLGRRLFKRLKVYAG 148
>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 = 50.7 bits (122), Expect = 1e-08
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
VVVDA LGRLA+++A + G VV + ++ ++G + K+ Y
Sbjct: 42 VVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKV-Y 100
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
R+ L+ + + P ++ V GM+P K ++G A RLK Y G
Sbjct: 101 TRYTGYQGGLKTE-----TAREALSKHPERVIEHAVFGMLP-KGRQGRAMHTRLKVYAG 153
>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 = 49.8 bits (119), Expect = 6e-08
Identities = 34/119 (28%), Positives = 52/119 (43%), Gaps = 25/119 (21%)
Query: 12 VVVDARHHMLGRLASIVAKELL------------NGQKVVAVRCEEICMSGGLVRQKMKY 59
VVDA +LGR+AS +A + G V+ V +++ +SG QK+ Y
Sbjct: 115 YVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKL-Y 173
Query: 60 MRF------LRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEG 112
R L++ + + R P +I VRGM+P K + G LK Y+G
Sbjct: 174 RRHSGRPGGLKEE-----TFDQLQKRIPERIIEHAVRGMLP-KGRLGRYLFNHLKVYKG 226
>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 = 37.9 bits (87), Expect = 0.001
Identities = 28/178 (15%), Positives = 46/178 (25%), Gaps = 73/178 (41%)
Query: 9 AKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMN 68
AK V++ +LG + VA ++ KV + M
Sbjct: 150 AKNVLI---DGVLGSGKTWVALDVCLSYKV------QCKMDFK----------------- 183
Query: 69 TKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKA---------------YEGV 113
IFW ++ L L+ +
Sbjct: 184 ---------------IFWLNLK-----NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 114 PAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITIL 171
++ L+ L K ++ CLL + V N F+ SC IL
Sbjct: 224 KLRIHSIQ-----AELRRLLKSKPYENCLL--VLLNV-QN-AKAWNA-FNLSC--KIL 269
Score = 30.6 bits (68), Expect = 0.29
Identities = 27/194 (13%), Positives = 55/194 (28%), Gaps = 72/194 (37%)
Query: 8 CAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRM 67
C ++++ R + + L+ + + S L ++K L K +
Sbjct: 266 C--KILL------TTRFKQVT--DFLSAATTTHISLDH--HSMTLTPDEVK--SLLLKYL 311
Query: 68 NTKPSHGP--IHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMV- 124
+ +P P + P ++ +I + G A K DK+ ++
Sbjct: 312 DCRPQDLPREVLTTNPRRL------SIIAESIRDGLATWDNWKHVN-----CDKLTTIIE 360
Query: 125 --------------------------IP-DALKVL-----------RLQKGHKYCLLGRL 146
IP L ++ + K HKY L+ +
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK- 419
Query: 147 ASEVGWNYYDTIRV 160
TI +
Sbjct: 420 -----QPKESTISI 428
>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 = 32.7 bits (74), Expect = 0.065
Identities = 33/169 (19%), Positives = 53/169 (31%), Gaps = 65/169 (38%)
Query: 9 AKRVVVDARHHM---LG-RLASIVA---KEL---LNGQKVVAVR------CEEICMSGGL 52
A+ V A +H G + IV L G+K +R E + G L
Sbjct: 1642 AQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKL 1701
Query: 53 VRQKMKYMRFLRKRMNTKPSHGPIHFRA------------PAKIF------WRTVR--GM 92
+K + K +N + FR+ PA + + ++ G+
Sbjct: 1702 KTEK------IFKEINEHSTS--YTFRSEKGLLSATQFTQPA-LTLMEKAAFEDLKSKGL 1752
Query: 93 IPHKTKRGA-------AALARLKAYEGVPAPYDKVKRMVIPDALKVLRL 134
IP A AALA + V M I ++V+
Sbjct: 1753 IPAD-ATFAGHSLGEYAALA---SLADV---------MSIESLVEVVFY 1788
>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 = 28.4 bits (62), Expect = 0.92
Identities = 10/37 (27%), Positives = 12/37 (32%), Gaps = 16/37 (43%)
Query: 98 KRGAAAL-ARLKAYEGVP--APYDKVKRMVIPDALKV 131
K+ L A LK Y AP AL +
Sbjct: 19 KQALKKLQASLKLYA--DDSAP-----------ALAI 42
>2btv_A T2A, T2B, protein (VP3 core protein); virus/viral protein,
icosahedral virus; 3.50A {Bluetongue virus} SCOP:
e.28.1.1
Length = 901
Score = 28.6 bits (63), Expect = 1.2
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 57 MKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAP 116
+ YM R ++N P+ P+ F+ + V T G A + PAP
Sbjct: 406 LLYMYNTRVQVNYGPTGEPLDFQIGRNQYDCNVFRADF-ATGTGYNGWATIDVEYRDPAP 464
Query: 117 YDKVKRMV 124
Y +R +
Sbjct: 465 YVHAQRYI 472
>4ad9_A Lactb2, beta-lactamase-like protein 2; hydrolase, metallo-beta
lactamase, mitochondria; 2.60A {Homo sapiens}
Length = 289
Score = 27.8 bits (62), Expect = 1.9
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 6/54 (11%)
Query: 71 PSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPA-PYDKVKRM 123
P HGP+ A AKI + I H+ R L + + VK +
Sbjct: 198 PGHGPVIHNAEAKI-----QQYISHRNIREQQILTLFRENFEKSFTVMELVKII 246
>2fd5_A Transcriptional regulator; DNA-binding protein, structural G PSI,
protein structure initiative, midwest center for struc
genomics, MCSG; 1.70A {Pseudomonas aeruginosa} SCOP:
a.4.1.9 a.121.1.1
Length = 180
Score = 27.3 bits (61), Expect = 2.4
Identities = 6/53 (11%), Positives = 13/53 (24%)
Query: 99 RGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVG 151
L + + ++ + R + C L +EV
Sbjct: 62 LLGKRRELLGELDPGLSGKERRALAAAFYLSRKHRDAQVDAGCPLPATLAEVA 114
>3on4_A Transcriptional regulator, TETR family; structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics; HET: MSE; 1.85A {Legionella pneumophila subsp}
Length = 191
Score = 26.9 bits (60), Expect = 2.9
Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 99 RGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVG 151
+ AA L+ + + + +K+++ DA+ L +K CL G AS+
Sbjct: 68 KIAAVLSDI-SNNSSLSAKEKIQKFF--DAILTLTYNSENKMCLGGMFASDFQ 117
>2g7s_A Transcriptional regulator, TETR family; APC5906, PSI, protein
structure initiat midwest center for structural
genomics, MCSG; HET: MSE; 1.40A {Agrobacterium
tumefaciens str} SCOP: a.4.1.9 a.121.1.1
Length = 194
Score = 26.5 bits (59), Expect = 4.5
Identities = 10/55 (18%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 97 TKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVG 151
+ A +A L+ + P ++++ + + H +C+ LASE+
Sbjct: 64 RQEAEAGIAELEK--NISDPLEQLRAYI--GYWEGCIADATHPFCVCALLASEIP 114
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
0.328 0.140 0.440
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,935,200
Number of extensions: 173579
Number of successful extensions: 503
Number of sequences better than 10.0: 1
Number of HSP's gapped: 478
Number of HSP's successfully gapped: 29
Length of query: 179
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 92
Effective length of database: 4,272,666
Effective search space: 393085272
Effective search space used: 393085272
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.8 bits)