RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 045554
(323 letters)
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 135
Score = 165 bits (418), Expect = 3e-51
Identities = 106/137 (77%), Positives = 120/137 (87%), Gaps = 2/137 (1%)
Query: 180 MLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV 239
ML PKR +F KQHRGRM G + RGN ICFGRYALQALEPAWIT+RQIEAGRRAM RN
Sbjct: 1 MLS--PKRTRFRKQHRGRMKGISYRGNRICFGRYALQALEPAWITSRQIEAGRRAMTRNA 58
Query: 240 KRGGKIWVRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAI 299
+RGGKIWVRIFPDKPVT RPAETRMGSGKGS YW AVV PG+I++E+SGV ENIAR+A+
Sbjct: 59 RRGGKIWVRIFPDKPVTVRPAETRMGSGKGSPEYWVAVVKPGRILYEISGVAENIARRAV 118
Query: 300 SIAASKMPIKTQFVMSG 316
+IAASKMPI+TQF++SG
Sbjct: 119 AIAASKMPIRTQFIISG 135
>2zjr_J 50S ribosomal protein L16; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.41.4.2 PDB: 1sm1_K* 2zjp_J* 2zjq_J
1nkw_K 3cf5_J* 3dll_J* 3pio_J* 1njm_K* 1nwx_K* 1njp_K*
1xbp_K* 1y69_K 1nwy_K* 3pip_J* 1pnu_K 1pny_K 1vor_N
1vou_N 1vow_N 1voy_N ...
Length = 142
Score = 162 bits (411), Expect = 5e-50
Identities = 78/134 (58%), Positives = 100/134 (74%), Gaps = 2/134 (1%)
Query: 180 MLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV 239
MLL PKR KF KQ RGRMTG A G+ + FG Y L A+EPAWI + QIEA R M R+
Sbjct: 2 MLL--PKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHF 59
Query: 240 KRGGKIWVRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAI 299
+RGGKI++RIFPDKPVT +PAETRMG GKG+ YW +VV PG+++FE++GV E A++A
Sbjct: 60 RRGGKIYIRIFPDKPVTKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQAKEAF 119
Query: 300 SIAASKMPIKTQFV 313
+A K+PI+T+ V
Sbjct: 120 RLAGHKLPIQTKMV 133
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M
2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M
2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Length = 136
Score = 158 bits (400), Expect = 2e-48
Identities = 75/134 (55%), Positives = 97/134 (72%), Gaps = 3/134 (2%)
Query: 180 MLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV 239
ML PKR KF K H+GR G A +G + FG + L+A+ +TARQIEA RRAM R V
Sbjct: 1 MLQ--PKRTKFRKMHKGRNRGLA-QGTDVSFGSFGLKAVGRGRLTARQIEAARRAMTRAV 57
Query: 240 KRGGKIWVRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAI 299
KR GKIW+R+FPDKP+T +P RMG GKG+ YW A++ PGK+++EM GVPE +AR+A
Sbjct: 58 KRQGKIWIRVFPDKPITEKPLAVRMGKGKGNVEYWVALIQPGKVLYEMDGVPEELAREAF 117
Query: 300 SIAASKMPIKTQFV 313
+AA+K+PIKT FV
Sbjct: 118 KLAAAKLPIKTTFV 131
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13,
mitochondrial; mitochondrial ribosome, large ribosomal
subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB:
3iy9_I
Length = 118
Score = 131 bits (331), Expect = 1e-38
Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 3/117 (2%)
Query: 198 MTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV--KRGGKIWVRIFPDKPV 255
+ G ++ G +A+ AL ++ E R + R++ K IW P KP+
Sbjct: 2 IRGPSTEATEFTEGNFAILALGGGYLHWGHFEMMRLTINRSMDPKNMFAIWRVPAPFKPI 61
Query: 256 TARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPEN-IARKAISIAASKMPIKTQ 311
T + RMG GKG+ ++ V G+++ EM G E + + A K+P +
Sbjct: 62 TRKSVGHRMGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEEVQGFLDQVAHKLPFAAK 118
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J*
1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J*
1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H*
1giy_P ...
Length = 157
Score = 94.6 bits (235), Expect = 7e-24
Identities = 26/120 (21%), Positives = 35/120 (29%), Gaps = 10/120 (8%)
Query: 205 GNLICFGRYA----LQALEPAWITARQIEAGRRAMVRNVKRGG-----KIWVRIFPDKPV 255
GN Y +P I +EA R A R V+ G K +R FP +
Sbjct: 34 GNNGAGPTYPAQVENVVEKPVQIRHNALEAARNAANRFVQNSGAAANYKFRIRKFPFHVI 93
Query: 256 TARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAISIAASKMPIKTQFVMS 315
+ M + G AA F P+ A A K+ S
Sbjct: 94 REQD-GDGMRAPFGKSVGTAARSHGANHDFIAWVNPDPAVEFAWRRAYMKVTPTVNIDSS 152
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 89.7 bits (222), Expect = 4e-22
Identities = 23/117 (19%), Positives = 43/117 (36%), Gaps = 16/117 (13%)
Query: 215 LQALEPAWITARQIEAGRRAMVRNV-----KRGGKIWVRIFPDKPVTARP---------A 260
+ + E +++ +EA R + + K G I VR+ P +
Sbjct: 21 MVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRL 80
Query: 261 ETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPEN--IARKAISIAASKMPIKTQFVMS 315
+T M G A V G++I + +N +A+ A K P + + +S
Sbjct: 81 QTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHIS 137
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 88.6 bits (219), Expect = 6e-21
Identities = 25/148 (16%), Positives = 46/148 (31%), Gaps = 20/148 (13%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKR-- 241
K G+ L L + E +++ +EA R + +
Sbjct: 23 AVPDSKIRIYDLGKKKATVDEFPLCVH----LVSNELEQLSSEALEAARICANKYMTTVS 78
Query: 242 ---GGKIWVRIFPDKPVTARPA---------ETRMGSGKGSHAYWAAVVTPGKIIFEMSG 289
+ VR+ P + + M G AA V G+IIF +
Sbjct: 79 GRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWGKPHGLAARVDIGQIIFSVRT 138
Query: 290 VPEN--IARKAISIAASKMPIKTQFVMS 315
N + + + A K P + + ++S
Sbjct: 139 KDSNKDVVVEGLRRARYKFPGQQKIILS 166
>1vq8_H 50S ribosomal protein L10E; 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.41.4.1 PDB: 1vq4_H*
1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H*
1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H*
2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Length = 171
Score = 80.5 bits (198), Expect = 2e-18
Identities = 27/149 (18%), Positives = 51/149 (34%), Gaps = 21/149 (14%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV-KRG 242
G K + GR + + + +L E + +EA R + R++ K
Sbjct: 22 GIPGSKIAQHKMGRK--QKDADDY--PVQISLIVEETVQLRHGSLEASRLSANRHLIKEL 77
Query: 243 GK-----IWVRIFPDKPVTARPA---------ETRMGSGKGSHAYWAAVVTPGKIIFEMS 288
G+ + +R FP + + M + G AA V G+ +F
Sbjct: 78 GEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAFGKIVGTAARVQAGEQLFTAY 137
Query: 289 GVPENI--ARKAISIAASKMPIKTQFVMS 315
E+ ++A A +K+ + S
Sbjct: 138 CNVEDAEHVKEAFRRAYNKITPSCRIDSS 166
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 80.9 bits (199), Expect = 4e-18
Identities = 29/151 (19%), Positives = 51/151 (33%), Gaps = 20/151 (13%)
Query: 185 PKRIKFPKQHRGRMT----GKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRN-V 239
PK ++ G +G L + E +++ +EA R A +
Sbjct: 18 PKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENVSSEALEAARIACNKYMT 77
Query: 240 KRGGK----IWVRIFPDKPVTARP---------AETRMGSGKGSHAYWAAVVTPGKIIFE 286
K GK + VR+ P + +T M G A V G+++
Sbjct: 78 KNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVDIGQVLLS 137
Query: 287 MSGVPEN--IARKAISIAASKMPIKTQFVMS 315
+ N A +A+ A K P + + + S
Sbjct: 138 VRCKESNAKHAEEALRRAKFKFPGRQKIIHS 168
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 79.7 bits (196), Expect = 8e-18
Identities = 29/148 (19%), Positives = 49/148 (33%), Gaps = 20/148 (13%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV---- 239
G K GR K L + + E +++ +EA R + +
Sbjct: 25 GVPDAKIRIFDLGRKKAKVDEFPLCGH----MVSDEYEQLSSEALEAARICANKYMVKSC 80
Query: 240 -KRGGKIWVRIFPDKPVTARP---------AETRMGSGKGSHAYWAAVVTPGKIIFEMSG 289
K G I VR+ P + +T M G A V G++I +
Sbjct: 81 GKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVAKVHIGQVIMSIRT 140
Query: 290 VPEN--IARKAISIAASKMPIKTQFVMS 315
+N +A+ A K P + + +S
Sbjct: 141 KLQNKEHVIEALRRAKFKFPGRQKIHIS 168
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 72.4 bits (177), Expect = 3e-15
Identities = 29/148 (19%), Positives = 50/148 (33%), Gaps = 20/148 (13%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV---- 239
G + GR + + + E IT+ +EA R A +N+
Sbjct: 25 GVPDARIRIYDSGRKKATVEEFPYVV----HIVSDEKEQITSEALEAARIAANKNLIKFI 80
Query: 240 -KRGGKIWVRIFPDKPVTARP---------AETRMGSGKGSHAYWAAVVTPGKIIFEMSG 289
K + R+ P + ++ M G AA V G I+F +
Sbjct: 81 SKDAFHLRCRVHPWHVLRINKMLSCAGADRLQSGMRGAFGKALGKAARVDIGSILFSVRV 140
Query: 290 VPEN--IARKAISIAASKMPIKTQFVMS 315
+ A A++ A +K P + + V S
Sbjct: 141 KEPHVKYAIDALTRAKAKFPGRQKVVTS 168
>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 = 51.2 bits (122), Expect = 3e-07
Identities = 49/368 (13%), Positives = 98/368 (26%), Gaps = 130/368 (35%)
Query: 16 KRTVNCFDGNLLRYNVIKSLSFRPVIPDPGPKLSSLQAKTFLMNPTTPILTSSSEA---- 71
+ F+ L N I +L A L T ++ +
Sbjct: 85 NLCLTEFENCYLEGNDIHAL-----------------AAKLLQENDTTLVKTKELIKNYI 127
Query: 72 NSRTPSNRDLKVQQSVGVMMGGRSFPLIFTNPNQNPNPNRL--QVSIGAALFFVLVGLFL 129
+R + R P + + L V G A + G
Sbjct: 128 TARIMAKR-----------------------PFDKKSNSALFRAVGEGNAQLVAIFG--- 161
Query: 130 FLLSSGQ------------------------IAGLQQKVLDLSHLLTETTKSLFLGHDTQ 165
GQ I + + +L + K G +
Sbjct: 162 -----GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Query: 166 RWIS--------DY---SPVTMSMSMLL------AGPKRIKF-PKQHRGRMTGKASRGNL 207
W+ DY P++ + ++ K + F P + R + G
Sbjct: 217 EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS-- 274
Query: 208 ICFGRYALQALEPAWITARQIEAGR--RAMVRNVKRGGKI--WV-----RIFPDKPVTAR 258
Q L +TA I + +V++ + ++ +P+ +
Sbjct: 275 --------QGL----VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 259 PAETRMGSGKGSHAYWAAV--VTPG---KIIFEM-SGVPENIARKAISIAASKMPIKTQF 312
E + + +G + ++ +T + + S +P K + I+
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG---KQVEISLVNGA--KNL 377
Query: 313 VMSGTSTS 320
V+SG S
Sbjct: 378 VVSGPPQS 385
Score = 40.4 bits (94), Expect = 7e-04
Identities = 38/245 (15%), Positives = 59/245 (24%), Gaps = 104/245 (42%)
Query: 84 Q--QSVGVMMG-------------------------GRSFPLIFTNPNQNPNPNRLQVSI 116
Q Q G MG G S I N NP L +
Sbjct: 1624 QGSQEQG--MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVIN-----NPVNLTIHF 1676
Query: 117 GAALFFVLVGLFLFLLSSGQIAGLQQKVLDLSHLLTETTKSLFLGHD---------TQRW 167
G + + ++ + G + K + + E + S + TQ
Sbjct: 1677 GGEKGKRIRENYSAMIFETIVDG-KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ-- 1733
Query: 168 ISDYSP--VTMSMSML--------------LAGPKRIKFPKQH----------------- 194
P M + AG H
Sbjct: 1734 -----PALTLMEKAAFEDLKSKGLIPADATFAG---------HSLGEYAALASLADVMSI 1779
Query: 195 ---------RGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNV-KRGGK 244
RG A + + Y + A+ P + A + + +V V KR G
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGW 1839
Query: 245 IWVRI 249
+ V I
Sbjct: 1840 L-VEI 1843
Score = 29.2 bits (65), Expect = 2.1
Identities = 17/111 (15%), Positives = 36/111 (32%), Gaps = 39/111 (35%)
Query: 7 LNSNRLLLSKRTVNCFDGNLLRYNVIKSLSFRPV-IPDPGPKLSSLQAKTF---LMNPTT 62
L+ +R+ S+R + S F PV P F L+ P +
Sbjct: 402 LDQSRIPFSERKLKF------------SNRFLPVASP-------------FHSHLLVPAS 436
Query: 63 PILTSSSEANSRTPSNRDLKV----------QQSVGVMMGGRSFPLIFTNP 103
++ N+ + + +D+++ + + + R I P
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
>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 = 35.7 bits (81), Expect = 0.006
Identities = 7/24 (29%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 32 IKSL--SFRPVIPDPGPKLSSLQA 53
+K L S + D P L +++A
Sbjct: 22 LKKLQASLKLYADDSAPAL-AIKA 44
>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 = 32.5 bits (73), Expect = 0.19
Identities = 55/364 (15%), Positives = 102/364 (28%), Gaps = 100/364 (27%)
Query: 10 NRLLLSKRTVNC---------------FDGN---LL--RY-NVIKSLS----FRPVIPDP 44
RLL SK NC F+ + LL R+ V LS +
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH 294
Query: 45 GPKLSSLQAKTFLMNPT-TPILTSSSEANSRTPSNRDLKVQQSVGVMMGGRSFPLIFTNP 103
L+ + K+ L+ E + P ++ + + R + N
Sbjct: 295 SMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP----RRLSI-IAESI--RDGLATWDN- 346
Query: 104 NQNPNPNRLQVSIGAAL----------FFVLVGLF----------LFLLSSGQIAGLQQK 143
++ N ++L I ++L F + +F L L+ I
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 144 VLDLSHLLTETTKSLFLGHDTQRWISDYSPVTMSMSMLLAGP----KRI----KFPKQHR 195
V++ H SL + IS S + + + + L + I PK
Sbjct: 407 VVNKLH-----KYSLVEKQPKESTISIPS-IYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 196 GRMTGKASRGNLICF--GRYALQALEPA--------------WITARQIEAG----RRAM 235
G + L+ +E ++ +
Sbjct: 461 SDDLIPPYLDQYFYSHIG-HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS 519
Query: 236 VRNVKRGGKIWVR-IFPDKPVTAR----------PAETRMGSGKGSHAYWAAVVTPGKII 284
+ N + K + I + P R E + K + A++ + I
Sbjct: 520 ILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAI 579
Query: 285 FEMS 288
FE +
Sbjct: 580 FEEA 583
>1nkg_A Rhamnogalacturonase B; polysaccharide lyase, carbohydrate active
enzyme, pectin, LY; 1.50A {Aspergillus aculeatus} SCOP:
b.3.1.2 b.18.1.25 b.30.5.10 PDB: 2xhn_A* 3njv_A* 3njx_A
Length = 508
Score = 31.1 bits (70), Expect = 0.54
Identities = 25/141 (17%), Positives = 44/141 (31%), Gaps = 31/141 (21%)
Query: 211 GRYALQALEPAWITARQ---IEAGRRAMV---RNVKRGGKIWVRI-----------FPDK 253
G Y + + + A + AG +VK G I+ +I
Sbjct: 302 GTYTMVYYQGEYAVATSSVTVSAGSTTTKNISGSVKTGTTIF-KIGEWDGQPTGFRNAAN 360
Query: 254 PVTARPAETRM----------GSGKGS---HAYWAAVVTPGKIIFEMSGVPENIARKAIS 300
+ P+++RM GS + A + +V P I F + A I
Sbjct: 361 QLRMHPSDSRMSSWGPLTYTVGSSALTDFPMAVFKSVNNPVTIKFTATSAQTGAATLRIG 420
Query: 301 IAASKMPIKTQFVMSGTSTSK 321
S + Q ++ + S
Sbjct: 421 TTLSFAGGRPQATINSYTGSA 441
>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase;
2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A
1yyf_D* 3ty6_A
Length = 180
Score = 30.0 bits (67), Expect = 0.68
Identities = 27/126 (21%), Positives = 40/126 (31%), Gaps = 17/126 (13%)
Query: 182 LAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVR-NVK 240
AG F + + GNL A L W + + + ++ N
Sbjct: 52 FAGSVADAFTLFEKFEAKLEEYNGNLKR----AAVELAKEWRSDKVLRKLEAMLIVMNQD 107
Query: 241 RGGKI---WVRIFPDKPVTARPAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARK 297
+ I PD + A +GSG G++A A MS IAR
Sbjct: 108 TLLLVSGTGEVIEPDDGILA------IGSG-GNYALAAGRALKKHAGESMS--ASEIARA 158
Query: 298 AISIAA 303
A+ A
Sbjct: 159 ALETAG 164
>3elf_A Fructose-bisphosphate aldolase; zinc enzyme, dihydroxyacetone,
glyceraldehyd phosphate, aldol condensation, glycolysis,
lyase; HET: 2FP; 1.31A {Mycobacterium tuberculosis} PDB:
3ekz_A* 3ekl_A* 4a22_A* 4a21_A*
Length = 349
Score = 28.8 bits (65), Expect = 2.5
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 288 SGVPENIARKAISIAASKMPIKT--QFVMS 315
SG ++ +A+ KM + T Q+ +
Sbjct: 255 SGSLKSEIEEALRYGVVKMNVDTDTQYAFT 284
>1q16_A Respiratory nitrate reductase 1 alpha chain; membrane protein,
electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA
3PH; 1.90A {Escherichia coli} SCOP: b.52.2.2 c.81.1.1
PDB: 3ir7_A* 1y5i_A* 1siw_A* 1y4z_A* 1r27_A* 1y5l_A*
1y5n_A* 3ir6_A* 3ir5_A* 3egw_A*
Length = 1247
Score = 28.9 bits (64), Expect = 2.7
Identities = 16/77 (20%), Positives = 25/77 (32%), Gaps = 15/77 (19%)
Query: 176 MSMSMLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALE---PAWITARQIEAGR 232
S S L R+K+P R L+ R A AW + +
Sbjct: 97 ASYSWYLYSANRLKYPMM----------RKRLMKMWREAKALHSDPVEAWASIIEDADKA 146
Query: 233 RAMVRNVKRGGKIWVRI 249
++ + RG +VR
Sbjct: 147 KSFKQ--ARGRGGFVRS 161
>3iz6_S 40S ribosomal protein S19 (S19E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 146
Score = 27.2 bits (60), Expect = 4.4
Identities = 14/69 (20%), Positives = 21/69 (30%), Gaps = 9/69 (13%)
Query: 166 RWISDYSPVTM-SMSMLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWIT 224
R I + + + G +R H K+S R LQ L+ I
Sbjct: 65 RKIYLRQGIGVGGFQKIYGGRQRNGSRPPH----FCKSSGAIS----RNILQQLQKMGII 116
Query: 225 ARQIEAGRR 233
+ GR
Sbjct: 117 DVDPKGGRL 125
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H';
structural genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 102
Score = 26.6 bits (59), Expect = 5.1
Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 19/82 (23%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKRGG 243
P R+ GR+TG+A + F + E AM ++
Sbjct: 40 NPMRVHIEIGPDGRVTGEA----DVEFATH---------------EDAVAAMAKDKANMQ 80
Query: 244 KIWVRIFPDKPVTARPAETRMG 265
+V +F + + G
Sbjct: 81 HRYVELFLNSTAGTSGSGPSSG 102
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 123
Score = 26.8 bits (59), Expect = 5.2
Identities = 17/87 (19%), Positives = 27/87 (31%), Gaps = 19/87 (21%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKRGG 243
G + I F GR TG A + F E + A+ ++ G
Sbjct: 53 GKEGILFVTYPDGRPTGDA----FVLFACE---------------EYAQNALRKHKDLLG 93
Query: 244 KIWVRIFPDKPVTARPAETRMGSGKGS 270
K ++ +F + R S G
Sbjct: 94 KRYIELFRSTAAEVQQVLNRFSSASGP 120
>1m4y_A ATP-dependent protease HSLV; N-terminal catalytic threonine
residue, hydrolase; 2.10A {Thermotoga maritima} SCOP:
d.153.1.4
Length = 171
Score = 27.3 bits (60), Expect = 5.3
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 3/45 (6%)
Query: 259 PAETRMGSGKGSHAYWAAVVTPGKIIFEMSGVPENIARKAISIAA 303
P + G G AA + ++S I KA++IA
Sbjct: 115 PDDDAAAIGSGGPYALAAAKALLRNT-DLS--AREIVEKAMTIAG 156
>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus
influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G*
1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C*
1ht2_A* 1ned_A
Length = 174
Score = 26.9 bits (59), Expect = 6.2
Identities = 13/94 (13%), Positives = 25/94 (26%), Gaps = 4/94 (4%)
Query: 212 RYALQALEPAWITARQIEAGRRAMVRNVKRGGKIWVRIFPDKPV--TARPAETRMGSGKG 269
+ L+ A A+ R + +P E ++ +
Sbjct: 66 MHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGS 125
Query: 270 SHAYWAAVVTPGKIIFEMSGVPENIARKAISIAA 303
Y + E+S I K++ IA
Sbjct: 126 GGNYALSAARALVENTELS--AHEIVEKSLRIAG 157
>3u5c_T 40S ribosomal protein S19-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_S 3o30_M 3o2z_M 3u5g_T 3jyv_T*
Length = 144
Score = 26.8 bits (59), Expect = 7.1
Identities = 15/57 (26%), Positives = 18/57 (31%), Gaps = 8/57 (14%)
Query: 177 SMSMLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRR 233
++ L G K AS R LQALE I + GRR
Sbjct: 75 KLNKLYGGAKSRGVRPYK----HIDASGSIN----RKVLQALEKIGIVEISPKGGRR 123
>1dos_A Aldolase class II; lyase, classii fructose 1,6-bisphosphate
aldolase, glycolysis; 1.67A {Escherichia coli} SCOP:
c.1.10.2 PDB: 1b57_A* 1gyn_A 1zen_A
Length = 358
Score = 27.4 bits (61), Expect = 7.4
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 288 SGVPENIARKAISIAASKMPIKT--QFVMSG 316
SG + ++S KM I T Q+
Sbjct: 267 SGSTAQEIKDSVSYGVVKMNIDTDTQWATWE 297
>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 109
Score = 25.9 bits (57), Expect = 8.9
Identities = 15/84 (17%), Positives = 23/84 (27%), Gaps = 19/84 (22%)
Query: 184 GPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWITARQIEAGRRAMVRNVKRGG 243
+ K H GR G L+ F + A+ RN
Sbjct: 41 RVDAVHLLKDHVGRNNGNG----LVKFLS---------------PQDTFEALKRNRMLMI 81
Query: 244 KIWVRIFPDKPVTARPAETRMGSG 267
+ +V + P A + SG
Sbjct: 82 QRYVEVSPATERQWVAAGGHITSG 105
>2v7f_A RPS19, RPS19E SSU ribosomal protein S19E; diamond blackfan anemia
small ribosomal subunit; 1.15A {Pyrococcus abyssi} SCOP:
a.4.5.84
Length = 150
Score = 26.4 bits (58), Expect = 9.1
Identities = 16/69 (23%), Positives = 21/69 (30%), Gaps = 9/69 (13%)
Query: 166 RWISDYSPV-TMSMSMLLAGPKRIKFPKQHRGRMTGKASRGNLICFGRYALQALEPAWIT 224
R + PV + G K + KA + R ALQ LE A
Sbjct: 60 RRVYLDGPVGIERLRTYYGGRKNRGHAPER----FYKAGGSII----RKALQQLEAAGFV 111
Query: 225 ARQIEAGRR 233
+ GR
Sbjct: 112 EKVPGKGRV 120
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
0.320 0.134 0.390
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,669,411
Number of extensions: 276880
Number of successful extensions: 539
Number of sequences better than 10.0: 1
Number of HSP's gapped: 520
Number of HSP's successfully gapped: 30
Length of query: 323
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 229
Effective length of database: 4,077,219
Effective search space: 933683151
Effective search space used: 933683151
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 (21.8 bits)
S2: 57 (26.2 bits)