RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 028649
(206 letters)
>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 = 225 bits (575), Expect = 1e-75
Identities = 176/206 (85%), Positives = 194/206 (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 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLN 180
KRMVIPDALKVLRLQ GH+YCLLG+L+ EVGWNY DTIRELE+KRKE+++V+Y+R+KQL
Sbjct: 121 KRMVIPDALKVLRLQPGHRYCLLGQLSKEVGWNYADTIRELEEKRKEKAKVSYDRRKQLA 180
Query: 181 KLRAKAEKVAEEKLGSQLDILAPVKY 206
KLR KAEK AEEKLG+QL+ILAP+KY
Sbjct: 181 KLRVKAEKAAEEKLGTQLEILAPIKY 206
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 217 bits (554), Expect = 8e-73
Identities = 85/177 (48%), Positives = 112/177 (63%)
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 LRLQKGHKYCLLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEK 188
LRL+ G KY LG+L++ VGW + A A A
Sbjct: 121 LRLKPGRKYTTLGKLSTSVGWKAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 177
>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 = 211 bits (539), Expect = 3e-70
Identities = 99/200 (49%), Positives = 132/200 (66%), Gaps = 2/200 (1%)
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 DALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKA 186
DALKV RL+ C LG L++ VGW I +LE+KR+ R++ +++K + R K
Sbjct: 121 DALKVQRLRNSRPVCKLGDLSASVGWGKQTLIEKLEEKRRARAKTYHDKKVKQADARKKE 180
Query: 187 EKVAEEKLGSQLDILAPVKY 206
K + D LA Y
Sbjct: 181 LAAPALK--AIKDKLAQFGY 198
>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 = 209 bits (532), Expect = 3e-69
Identities = 100/194 (51%), Positives = 131/194 (67%), Gaps = 1/194 (0%)
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 KVLRLQKGHKYCLLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEK- 188
+VLRL+ G KY LG+L++ VGW Y D + +LE KRK S Y +K+ K A A
Sbjct: 125 RVLRLKPGRKYTTLGKLSTSVGWKYEDVVAKLEAKRKVSSAEYYAKKRAFTKKVASANAT 184
Query: 189 VAEEKLGSQLDILA 202
AE + QL L
Sbjct: 185 AAESDVAKQLAALG 198
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 203
Score = 204 bits (519), Expect = 4e-67
Identities = 113/193 (58%), Positives = 146/193 (75%)
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 KVLRLQKGHKYCLLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEKV 189
KV+RL+ K+ LGRLA EVGW Y LE+KRKE++++ Y +KKQL +LR +AEK
Sbjct: 125 KVVRLKPTRKFAYLGRLAHEVGWKYQAVTATLEEKRKEKAKIHYRKKKQLMRLRKQAEKN 184
Query: 190 AEEKLGSQLDILA 202
E+K+ ++L
Sbjct: 185 VEKKIDKYTEVLK 197
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly,
ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1
Length = 142
Score = 200 bits (512), Expect = 7e-67
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
>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 = 183 bits (467), Expect = 5e-60
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
>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 = 50.7 bits (122), Expect = 1e-08
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 = 48.7 bits (117), Expect = 8e-08
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 = 48.3 bits (116), Expect = 9e-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: 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 = 48.4 bits (116), Expect = 1e-07
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 = 48.0 bits (115), Expect = 2e-07
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 = 47.1 bits (112), Expect = 7e-07
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 = 39.8 bits (92), Expect = 4e-04
Identities = 31/233 (13%), Positives = 69/233 (29%), Gaps = 69/233 (29%)
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 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 147 ASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEKVAEEKLGSQLD 199
E + EL+ K + + + ++ +++ + LD
Sbjct: 421 PKESTISIPSIYLELKVKLENEYAL---HRSIVDHYNIPKTFDSDDLIPPYLD 470
Score = 36.8 bits (84), Expect = 0.004
Identities = 31/231 (13%), Positives = 58/231 (25%), Gaps = 89/231 (38%)
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 PAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLA----SEVGWNYYD-------TIRELE 162
++ L+ L K ++ CLL L ++ WN ++ T R +
Sbjct: 224 KLRIHSIQ-----AELRRLLKSKPYENCLL-VLLNVQNAKA-WNAFNLSCKILLTTRFKQ 276
Query: 163 -------KKRKERSQVAYER---KKQLNKLRAKAEKVAEEKLGSQLDILAP 203
S + ++ L K + L ++ P
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 33.6 bits (76), Expect = 0.024
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 152 WNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEKVAEE 192
W RE ++KR + A + +Q + R KA+K EE
Sbjct: 90 W------REEQRKRLQELDAASKVMEQ--EWREKAKKDLEE 122
Score = 31.3 bits (70), Expect = 0.14
Identities = 8/38 (21%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 162 EKKRKERSQVAYERKKQLNKLRAKAEKVAEEKLGSQLD 199
EK +K+ + + +Q+ K + ++A++ Q D
Sbjct: 114 EKAKKDLEEWNQRQSEQVEKNKINN-RIADKAFYQQPD 150
Score = 31.3 bits (70), Expect = 0.15
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 5/38 (13%)
Query: 160 ELEKKRKERSQVAYERKKQLNKLRAKAEKVAEEKLGSQ 197
E E RK R E++K+L + A KV E++ +
Sbjct: 83 EPESIRKWRE----EQRKRLQE-LDAASKVMEQEWREK 115
>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 = 33.9 bits (77), Expect = 0.033
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
Score = 32.3 bits (73), Expect = 0.11
Identities = 46/254 (18%), Positives = 77/254 (30%), Gaps = 81/254 (31%)
Query: 2 VSGSGIC---AKRVVVDARHHML--GRLASIVAKELLNGQKVVAVRCEEICMSGG---LV 53
+S I VV A+ G L S + + Q +V I +
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA--IAETDSWESFF 293
Query: 54 RQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRG--MIPHKTKRGAAALARLKAYE 111
K + L F+ VR P+ + + L+ E
Sbjct: 294 VSVRKAITVL---------------------FFIGVRCYEAYPNTSLPPSILEDSLENNE 332
Query: 112 GVPAP--------YDKVKRMV------IPDALKV-LRLQKGHK-YCLLGRLASEVGWNYY 155
GVP+P ++V+ V +P +V + L G K + G S G N
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN-- 390
Query: 156 DTIRELEKKR----KERSQVAY-ERKKQLN------------KLRAKAEKVAEEKL---- 194
L K + ++S++ + ERK + + L A + + L
Sbjct: 391 ---LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNN 447
Query: 195 ----GSQLDILAPV 204
+ I PV
Sbjct: 448 VSFNAKDIQI--PV 459
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A*
1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E*
1ht1_E* 1ht2_E*
Length = 444
Score = 32.3 bits (74), Expect = 0.082
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 3/32 (9%)
Query: 174 ERKKQLNKLRAKAEKVAEEKLGSQLDILAPVK 205
R++++ K RA+AE VAEE++ LD L P
Sbjct: 111 VRQQEIAKNRARAEDVAEERI---LDALLPPA 139
>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 = 29.9 bits (66), Expect = 0.35
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 187 EKVAEEKLGSQLDILAP 203
EK A +KL + L + A
Sbjct: 18 EKQALKKLQASLKLYAD 34
Score = 28.4 bits (62), Expect = 1.3
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 8/28 (28%)
Query: 176 KKQLNKLRAKAEKVAEEKLGSQLDILAP 203
K+ L KL+A + A++ AP
Sbjct: 19 KQALKKLQASLKLYADDS--------AP 38
Score = 26.5 bits (57), Expect = 4.5
Identities = 8/22 (36%), Positives = 9/22 (40%), Gaps = 5/22 (22%)
Query: 98 KRGAAAL-ARLKAYEGVP--AP 116
K+ L A LK Y AP
Sbjct: 19 KQALKKLQASLKLYA--DDSAP 38
>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 = 1.8
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
>3uo9_A Glutaminase kidney isoform, mitochondrial; hydrolase-hydrolase
inhibitor complex; HET: 04A; 2.30A {Homo sapiens} PDB:
3unw_A* 3ss3_A 3ss4_A 3ss5_A*
Length = 534
Score = 28.2 bits (62), Expect = 2.0
Identities = 9/46 (19%), Positives = 15/46 (32%)
Query: 142 LLGRLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAE 187
L S ++ YD +R KK R + +R +
Sbjct: 447 FCHDLVSLCNFHNYDNLRHFAKKLDPRREGGDQRHSFGPLDYESLQ 492
>4ad9_A Lactb2, beta-lactamase-like protein 2; hydrolase, metallo-beta
lactamase, mitochondria; 2.60A {Homo sapiens}
Length = 289
Score = 28.2 bits (63), Expect = 2.0
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
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 27.1 bits (61), Expect = 4.3
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 7/41 (17%)
Query: 160 ELEKKRKERSQVAYERKKQLNKL-------RAKAEKVAEEK 193
++ K ++ ++ KL +A E V E+
Sbjct: 801 WRRRQEKRLKELLALAERSQRKLASPGFREKAPKEVVEAEE 841
>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 = 26.5 bits (59), Expect = 5.4
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 = 26.1 bits (58), Expect = 7.3
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
>3jxe_A Tryptophanyl-tRNA synthetase; adenosine triphosphate, rossmann
fold, crystallography, X-RAY, P. horikoshii,
aminoacyl-tRNA synthetase; HET: TYM; 3.00A {Pyrococcus
horikoshii}
Length = 392
Score = 26.2 bits (58), Expect = 9.8
Identities = 6/50 (12%), Positives = 15/50 (30%), Gaps = 3/50 (6%)
Query: 145 RLASEVGWNYYDTIRELEKKRKERSQVAYERKKQLNKLRAKAEKVAEEKL 194
R + + +RK+ ++ + K + + E L
Sbjct: 337 RYLISKIQEFLKEHQR---RRKKAEKLVEKFKYTGKLAQEMWNEAIPEPL 383
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
0.322 0.136 0.399
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: 3,277,299
Number of extensions: 198974
Number of successful extensions: 643
Number of sequences better than 10.0: 1
Number of HSP's gapped: 619
Number of HSP's successfully gapped: 59
Length of query: 206
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 117
Effective length of database: 4,216,824
Effective search space: 493368408
Effective search space used: 493368408
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: 55 (25.2 bits)