RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8363
(536 letters)
>4a17_U RPL35, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_U 4a1c_U 4a1e_U
Length = 124
Score = 155 bits (394), Expect = 8e-46
Identities = 47/120 (39%), Positives = 83/120 (69%), Gaps = 2/120 (1%)
Query: 306 SVKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIV 365
V+ +LRT+ +++L+ +L +L+TEL+ LR+AK+ GG A+KL +I +VRKAI + +
Sbjct: 2 DKSVRVFKLRTQTEEQLVGELGKLQTELSQLRIAKIAGGTANKLGRIGIVRKAIAKYLTI 61
Query: 366 MHQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRK 425
+++K+++ +++ + K KPLD+R KKTRA+RR+LTK +R+ +K ++ F RK
Sbjct: 62 INEKRRQAVKDQFKG--KSLKPLDIRVKKTRAIRRKLTKKQREAVLVKTQKKLNNFGLRK 119
>2zkr_v 60S ribosomal protein L35; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 123
Score = 153 bits (388), Expect = 5e-45
Identities = 78/119 (65%), Positives = 94/119 (78%), Gaps = 2/119 (1%)
Query: 307 VKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVM 366
K+K +LR K K+ELLKQL++LK EL+ LRVAKVTGGAASKLSKIRVVRK+I RV V+
Sbjct: 2 AKIKARDLRGKKKEELLKQLDDLKVELSQLRVAKVTGGAASKLSKIRVVRKSIARVLTVI 61
Query: 367 HQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRK 425
+Q QKEN+R + KKYKPLDLRPKKTRA+RRRL KHE LKT K+ R+ + +P RK
Sbjct: 62 NQTQKENLRKFYKG--KKYKPLDLRPKKTRAMRRRLNKHEENLKTKKQQRKERLYPLRK 118
>3iz5_C 60S ribosomal protein L3 (L3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_C
Length = 389
Score = 148 bits (376), Expect = 4e-43
Identities = 3/120 (2%), Positives = 15/120 (12%), Gaps = 3/120 (2%)
Query: 306 SVKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIV 365
K + + + + + + + +
Sbjct: 3 HRKFEHPRHGSLGFLPRKRCSRHRGKVKSFPKDDQQKPCH-LTAFLGYKAGMTHIVREVE 61
Query: 366 MHQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRK 425
+ + L A + +
Sbjct: 62 KPGSKLHKKETCEAV--TIIETPPLVIVGLVAYVKTPRGLRTLNSVWAQHLSEDVRRRFY 119
>3u5e_H L8, RP24, YL11, 60S ribosomal protein L9-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3izc_F
1s1i_H 3izs_F* 3j16_F 3o5h_I 3o58_I 3u5i_H 3jyw_H
Length = 191
Score = 145 bits (367), Expect = 5e-42
Identities = 7/119 (5%), Positives = 22/119 (18%), Gaps = 5/119 (4%)
Query: 307 VKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVM 366
++ + + + + + + L V
Sbjct: 2 KYIQTEQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLK---HIDVTFTKVNNQLIKVAVH 58
Query: 367 HQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRK 425
+ +K K + K + R + + F +
Sbjct: 59 NGGRKHVAALRTVK--SLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAKFIEVR 115
>3jyw_X 60S ribosomal protein L35; eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus}
Length = 86
Score = 97.0 bits (241), Expect = 1e-24
Identities = 29/68 (42%), Positives = 41/68 (60%), Gaps = 3/68 (4%)
Query: 308 KVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMH 367
VK ELRTK K++L QL +LK ELA L+V K++ L KI+ VRK+I V V++
Sbjct: 2 GVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSR---PSLPKIKTVRKSIACVLTVIN 58
Query: 368 QKQKENMR 375
++Q
Sbjct: 59 EQQAAAAA 66
>1vq8_V 50S ribosomal protein L29P; 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: a.2.2.1 PDB: 1vq4_V*
1vq5_V* 1vq6_V* 1vq7_V* 1s72_V* 1vq9_V* 1vqk_V* 1vql_V*
1vqm_V* 1vqn_V* 1vqo_V* 1vqp_V* 1yhq_V* 1yi2_V* 1yij_V*
1yit_V* 1yj9_V* 1yjn_V* 1yjw_V* 2otj_V* ...
Length = 71
Score = 85.4 bits (212), Expect = 9e-21
Identities = 20/69 (28%), Positives = 33/69 (47%)
Query: 307 VKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVM 366
+ E+R E +L++LKTEL N R + GGA +I+ +RKAI R+ +
Sbjct: 2 TVLHVQEIRDMTPAEREAELDDLKTELLNARAVQAAGGAPENPGRIKELRKAIARIKTIQ 61
Query: 367 HQKQKENMR 375
++
Sbjct: 62 GEEGDLQEN 70
>3v2d_2 50S ribosomal protein L29; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_W 1vsa_W 2j03_2 2jl6_2 2jl8_2 2v47_2 2v49_2 2wdi_2
2wdj_2 2wdl_2 2wdn_2 2wh2_2 2wh4_2 2wrj_2 2wrl_2 2wro_2
2wrr_2 2x9s_2 2x9u_2 2xg0_2 ...
Length = 72
Score = 57.5 bits (139), Expect = 5e-11
Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 306 SVKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIV 365
V+ + E R EL K + E K EL LR G S+ KIR +++ I R+ V
Sbjct: 5 EVRKQLEEARKLSPVELEKLVREKKRELMELRFQASIGQ-LSQNHKIRDLKRQIARLLTV 63
Query: 366 MHQKQKEN 373
+++K+++N
Sbjct: 64 LNEKRRQN 71
>3r8s_Y 50S ribosomal protein L29; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_W 1p86_W 1vs8_X 1vs6_X 2aw4_X 2awb_X 1vt2_Y 2i2v_Y
2j28_X 2i2t_Y* 2qao_X* 2qba_X* 2qbc_X* 2qbe_X 2qbg_X
2qbi_X* 2qbk_X* 2qov_X 2qox_X 2qoz_X* ...
Length = 63
Score = 56.1 bits (136), Expect = 1e-10
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 310 KCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQK 369
K ELR K +EL +L L E NLR+ + G + ++ VR+ + RV ++++K
Sbjct: 2 KAKELREKSVEELNTELLNLLREQFNLRMQAAS-GQLQQSHLLKQVRRDVARVKTLLNEK 60
Query: 370 QK 371
Sbjct: 61 AG 62
>1r73_A TM1492, 50S ribosomal protein L29; ribosome, structural genomics,
PSI, protein structure initiative, joint center for
structural genomics; NMR {Thermotoga maritima} SCOP:
a.2.2.1
Length = 66
Score = 55.4 bits (134), Expect = 3e-10
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 1/61 (1%)
Query: 310 KCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQK 369
K SELR +EL LEE K +L LR G S I++ ++ I R+ ++ ++
Sbjct: 2 KASELRNYTDEELKNLLEEKKRQLMELRFQLAM-GQLKNTSLIKLTKRDIARIKTILRER 60
Query: 370 Q 370
+
Sbjct: 61 E 61
>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 = 62.4 bits (151), Expect = 3e-10
Identities = 89/606 (14%), Positives = 165/606 (27%), Gaps = 237/606 (39%)
Query: 7 LVPSPSAPLSQSMPGQMRS--VGMAPSPSGSLNTPGQAQPTSSP---------CPTQEDQ 55
LVP+ S ++ Q++ + P P+ +PT+ + +
Sbjct: 21 LVPTASFFIAS----QLQEQFNKILPEPTEGF--AADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 56 VYRDKIRQLSKYIEPLRRMI--------------ARAANDDIEKTTKMKKLLEILQSPNK 101
++ ++ + L + A AA E T + K E++++
Sbjct: 75 ------SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN--- 125
Query: 102 RMPLETLLKCEHVLEKLDFKHSSLLRDHHPLLEAVSGALQSSNANHTLQRTFG------P 155
+ D K +S L AV NA FG
Sbjct: 126 -----YITARIMAKRPFDKKSNS------ALFRAV----GEGNAQLVAI--FGGQGNTDD 168
Query: 156 CLEIL------SGPLIKDLPLPVNRKRVEEPADDVPEVLQGEIARLDQRFKVSLDPTQQS 209
E L L+ DL ++ A E L E+ R +
Sbjct: 169 YFEELRDLYQTYHVLVGDL--------IKFSA----ETLS-ELIRTTLDAEKVF------ 209
Query: 210 GSKAIQLVCWLDDRHLPCVPPIQVSIPEDYPSHPPR-------------CTMGHEHNTTP 256
++ + ++ WL++ P P +DY P TP
Sbjct: 210 -TQGLNILEWLEN---PSNTP-----DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 257 F-LTSVKNALESRIKKLPLKYSVSQLL----DTWE---------------MSVR-QACAP 295
L S + L V+ + D+WE + VR P
Sbjct: 261 GELRSYLKGATGHSQGL-----VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP 315
Query: 296 TRNPTSS------------PS--ISVKVKCSELRTKDKKELLKQLEELKTELANLRVAKV 341
+ S PS +S+ ++++ + + + L +
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSI-------SNLTQEQVQDYVNKTNSHLPAGK---- 364
Query: 342 TGGAASKLSKIRVVRKAILRVYIVMHQKQKEN-MRNLIRKEHKKYKPLDLRPKKTRALRR 400
+V I + N +NL+ P L L
Sbjct: 365 -------------------QVEISLV-----NGAKNLVVSGP----PQSL-----YGLNL 391
Query: 401 RLTKHERKLKTLKEI-RRRQAFPPRKDLP------LPVNRKRVEEP-----ADDVPEVLQ 448
L RK K + + R F RK LPV P +++
Sbjct: 392 TL----RKAKAPSGLDQSRIPFSERK--LKFSNRFLPVA-----SPFHSHLLVPASDLIN 440
Query: 449 GEIARLDQRFKVS-L-----------DPTQQSGSKAIQLVCWLDDRHLPCVPPIQ-VSIP 495
++ + + F + D SGS + ++V + P++ +
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI------IRLPVKWETTT 494
Query: 496 EDYPSH 501
+ +H
Sbjct: 495 QFKATH 500
Score = 53.5 bits (128), Expect = 2e-07
Identities = 58/364 (15%), Positives = 104/364 (28%), Gaps = 123/364 (33%)
Query: 1 MVASPALVPSPSAPLSQSMPGQMRSV---GMAPSPSGSLNTPGQAQPTSSPCPTQEDQVY 57
M P S SA G + V G GQ Y
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQLVAIFG------------GQGNT----------DDY 169
Query: 58 RDKIRQLSK-YIEPLRRMIARAA---NDDIEKTTKMKKL----LEI---LQSPNKR---- 102
+++R L + Y + +I +A ++ I T +K+ L I L++P+
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 103 --------MPLETLLKCEH---VLEKLDFKHSSLLRDHHPLLEAVSG---------ALQS 142
PL +++ H + L F L R + L+ +G A+
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL-RSY---LKGATGHSQGLVTAVAIAE 285
Query: 143 S--------NANHTL----------QRTFGP----------CLEILSG---PL--IKDLP 169
+ + + + LE G P+ I +L
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 170 LPVNRKRVEEPADDVPEVLQGEIARL---DQRFKVSLDPTQQSGSKAIQLVCWLDDRHLP 226
+ V + +P Q EI+ L + VS P G L L R
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEIS-LVNGAKNLVVSGPPQSLYG-----LNLTL--RKAK 397
Query: 227 CVPPI-QVSIPEDYPSHPPRCTMG--------HEHNTTPFLTSVKNALESRIKKLPLKYS 277
+ Q IP + + + H + L + + + K + ++
Sbjct: 398 APSGLDQSRIP--FSERKLKFSNRFLPVASPFH----SHLLVPASDLINKDLVKNNVSFN 451
Query: 278 VSQL 281
+
Sbjct: 452 AKDI 455
Score = 50.8 bits (121), Expect = 1e-06
Identities = 49/285 (17%), Positives = 95/285 (33%), Gaps = 86/285 (30%)
Query: 252 HNTTPF-LTSVKNALESRIKKLP--LKYSVSQLLDTWEMSVRQACAPTRN------PTSS 302
++T P L+ +LE + +P + SQL + + + + PT PT+
Sbjct: 4 YSTRPLTLSH--GSLEHVLL-VPTASFFIASQLQEQFNKILPE---PTEGFAADDEPTTP 57
Query: 303 PS--------ISVKVKCSELRTKDK--KELLKQLEE--LKTELANLRVAKVTGGAASKLS 350
+S V+ S++ D+ L + E L+ + AK+ + L
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 351 KIRVVRKAILRVYIVMHQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKL- 409
K K +++ YI R + ++ P D + AL R + + +L
Sbjct: 118 K----TKELIKNYI--------TARIMAKR------PFDKKSNS--ALFRAVGEGNAQLV 157
Query: 410 ----------KTLKEIRRR-QAFPPRKDLPLPVNRKRVEEPADDVPEVLQGEIARLDQRF 458
+E+R Q + V + E L E+ R
Sbjct: 158 AIFGGQGNTDDYFEELRDLYQTYHVL-----------VGDLIKFSAETLS-ELIRTTLDA 205
Query: 459 KVSLDPTQQSGSKAIQLVCWLDDRHLPCVPPIQVSIPEDYPSHPP 503
+ ++ + ++ WL++ P P +DY P
Sbjct: 206 EKVF-------TQGLNILEWLEN---PSNTP-----DKDYLLSIP 235
Score = 37.3 bits (86), Expect = 0.014
Identities = 67/428 (15%), Positives = 113/428 (26%), Gaps = 157/428 (36%)
Query: 179 EPADDVPEVLQGEIARLDQRFKVSL-DPTQQSGSKAIQLVCWLDDRHLPCVPPIQVSIPE 237
E VP ++L ++F L +PT+ DD + E
Sbjct: 17 EHVLLVPTASFFIASQLQEQFNKILPEPTEGF---------AADDE--------PTTPAE 59
Query: 238 ------DYPSHPPRCTMGHEHNTTPFLTSVKNALESRIKKLPLKYS-----VSQLLDTWE 286
Y S L E+ L+ + ++LL +
Sbjct: 60 LVGKFLGYVSS--LVEPSKVGQFDQVLNLCLTEFENCY----LEGNDIHALAAKLLQEND 113
Query: 287 MSVR----------QACAPTRNPTSSPSISVKVKCSELRTKDKKELLKQLEELKTELANL 336
++ A + P S S L + + E N
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNS--------------ALFRAVGE-----GNA 154
Query: 337 RVAKVTGGAASKLSKIRVVRKAILRVYIVMHQKQ-------KENMRNLIRKEHKKYKPL- 388
++ + GG Q +E +R+L ++ Y L
Sbjct: 155 QLVAIFGG-------------------------QGNTDDYFEE-LRDL----YQTYHVLV 184
Query: 389 -DLRPKKTRALRRRLTKHERKLKTLKE-------IRRRQAFPPRKDL---P--LP----- 430
DL L + K + + P + L P P
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 431 ------VNRKRVEEPADDVPEVLQGE------------IARLDQRFKVSLDPTQQSGSKA 472
V K + ++ L+G IA D S + S KA
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD-----SWESFFVSVRKA 299
Query: 473 IQLVCWLDDRHLPCVPPIQVSIPEDYPSHPPRCTMGHEHNTTPFLTSVKN----ALESRI 528
I ++ ++ R P S+P PS +E +P L S+ N ++ +
Sbjct: 300 ITVLFFIGVRCYEAYP--NTSLP---PSILEDSLENNEGVPSPML-SISNLTQEQVQDYV 353
Query: 529 KK----LP 532
K LP
Sbjct: 354 NKTNSHLP 361
Score = 32.3 bits (73), Expect = 0.54
Identities = 44/242 (18%), Positives = 80/242 (33%), Gaps = 84/242 (34%)
Query: 88 KMKKLLEILQSPNKRMPLETLLKCEHVLEKLDFKHSSLLRDH-----------HPLLEAV 136
K K++ E + ++ LK E + ++++ +S P L +
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 137 SGA----LQSSN--------ANHTLQRTFG-----PCL-EILSGPLIKDLPLPVNRKRVE 178
A L+S A H+L G L +++S I+ L + V R
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSL----GEYAALASLADVMS---IESL-VEVVFYRGM 1791
Query: 179 EPADDVPEVLQGEIARLDQRFKVSLDPTQQSGS---KAIQLVC--------WLDDRHLPC 227
VP + E+ R + ++++P + + S +A+Q V WL
Sbjct: 1792 TMQVAVP---RDELGRSNYGM-IAINPGRVAASFSQEALQYVVERVGKRTGWL------V 1841
Query: 228 ------VPPIQVSIPEDYPSHPPRCTMGHEHNTTPFLTSVKNALES----RIKKLPLKYS 277
V Q + G L +V N L +I + L+ S
Sbjct: 1842 EIVNYNVENQQYVA-----A-------GDLRA----LDTVTNVLNFIKLQKIDIIELQKS 1885
Query: 278 VS 279
+S
Sbjct: 1886 LS 1887
>2zjr_V 50S ribosomal protein L29; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: a.2.2.1 PDB: 1nwx_W* 1nwy_W* 1sm1_W*
1xbp_W* 2aar_W 2d3o_W 2zjp_V* 2zjq_V 1nkw_W 3cf5_V*
3dll_V* 3pio_V* 3pip_V* 1pnu_W 1pny_W 1vor_Y 1vou_Y
1vow_Y 1voy_Y 1vp0_Y
Length = 67
Score = 49.7 bits (119), Expect = 2e-08
Identities = 15/63 (23%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 309 VKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQ 368
+K SE+R + K+++ K EL LR G A ++R +R+ + ++ V +
Sbjct: 1 MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQP-HRVRQLRREVAQLNTVKAE 59
Query: 369 KQK 371
+
Sbjct: 60 LAR 62
>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 = 54.9 bits (131), Expect = 5e-08
Identities = 98/614 (15%), Positives = 178/614 (28%), Gaps = 195/614 (31%)
Query: 52 QEDQVYRDKIRQ-LSKYIEPLRRMIARAAND--DIEKTTKM----KKLLEILQSPNK--- 101
+ Y+D + +++ D D++ K +++ I+ S +
Sbjct: 13 EHQYQYKDILSVFEDAFVDNF---------DCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 102 -RMPLETLL-KCEHVLEKLDFKHSSLLRDHHPLLEAVSGALQSSNANHTLQRTFGPCLEI 159
TLL K E +++K F L ++ L+ + + + R + +
Sbjct: 64 TLRLFWTLLSKQEEMVQK--FVEEVLRINYKFLMSPIKTEQRQPSMM---TRMYIEQRDR 118
Query: 160 L--SGPLIKDLPLPVNRKRVEEPADDVPEVLQGEIARLDQRFKVSLDPTQQSGSK---AI 214
L + V+R +P + + L L V +D SG K A+
Sbjct: 119 LYNDNQVFA--KYNVSR---LQPYLKLRQALL----ELRPAKNVLIDGVLGSG-KTWVAL 168
Query: 215 QLVCWLDDRHLPCVPPIQV--------SIPED---------YPSHPPRCTMGHEHNTTPF 257
VC + C ++ + PE Y P + +
Sbjct: 169 D-VC--LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 258 -LTSVKNALESRIKKLPLKYSVSQLLDTWEMSVRQA----C---APTRNPTSSPSISVKV 309
+ S++ L +K P + + LL+ A C TR + +S
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285
Query: 310 KC-------SELRTKDK-KELLKQ-----LEELKTE------LA-NLRVAKVTGGAA--- 346
S T D+ K LL + ++L E ++ + G A
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD 345
Query: 347 -------SKLSKIR----------VVRK-----AILR--VYI----------------VM 366
KL+ I RK ++ +I VM
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405
Query: 367 HQKQKENMRNLIRKEHKKYK------PLDLRPK--KTRALRRRLTKHERKLKTLKEIRRR 418
K + +L+ K+ K+ L+L+ K AL R + H K
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK-------- 457
Query: 419 QAFPPRKDLPLPVN------------RKRVEEPADDVPEVLQGEIARLDQRF---KVSLD 463
F +P ++ E V LD RF K+ D
Sbjct: 458 -TFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF------LDFRFLEQKIRHD 510
Query: 464 PTQQSGSKAIQLVCWLDDRHLPCVPPIQVSIPEDY--PSHPPRCTM---------GHEHN 512
T + S +I L+ Q+ + Y + P + E N
Sbjct: 511 STAWNASGSI-----LNTLQ-------QLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Query: 513 T--TPFLTSVKNAL 524
+ + ++ AL
Sbjct: 559 LICSKYTDLLRIAL 572
Score = 52.2 bits (124), Expect = 4e-07
Identities = 61/424 (14%), Positives = 127/424 (29%), Gaps = 121/424 (28%)
Query: 12 SAPLSQSMPGQMR--SVGMAPSPSGSL----NTPGQAQPTSSPCPTQEDQVYRDKIRQLS 65
S + M ++ ++ SP L Q P + + D K+R +
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS---RSDHSSNIKLR-IH 228
Query: 66 KYIEPLRRMIARAAN-------DDIEK---------------TTKMKKLLEILQSPN-KR 102
LRR++ +++ TT+ K++ + L +
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH 288
Query: 103 MPLE------TLLKCEHVLEK-LDFKHSSL---LRDHHPLLEAVSGALQSSNANH----- 147
+ L+ T + + +L K LD + L + +P ++
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348
Query: 148 -----TLQRTFGPCLEILSGPLIK-----------DLPLPVNRKRV---EEPADDVPEVL 188
L L +L + +P + + DV V+
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408
Query: 189 Q-----GEIARLDQRFKVSLDPTQQSGSKAIQLVCWLDDR---HLPCVPPIQVSIPEDYP 240
+ + + +S+ P+ ++L L++ H V +IP+ +
Sbjct: 409 NKLHKYSLVEKQPKESTISI-PSIY-----LELKVKLENEYALHRSIVD--HYNIPKTFD 460
Query: 241 SH---PPRCTM------GHEHNTTPFLTSVKNALESRIKKLPLKYSVSQLLD-TW-EMSV 289
S PP GH H L ++++ R+ + + LD + E +
Sbjct: 461 SDDLIPPYLDQYFYSHIGH-H-----LKNIEHP--ERMTLFRMVF-----LDFRFLEQKI 507
Query: 290 RQACAPTRNPTSSPS-----------ISVKVKCSELRTKDKKELLKQLEE--LKTELANL 336
R S + I E + L ++EE + ++ +L
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 337 -RVA 339
R+A
Sbjct: 568 LRIA 571
>3bbo_Z Ribosomal protein L29; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 173
Score = 40.2 bits (93), Expect = 4e-04
Identities = 25/101 (24%), Positives = 51/101 (50%), Gaps = 7/101 (6%)
Query: 292 ACAPTRNPTSSPSISV----KVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAAS 347
A A + + PS+ + + + E+R+K ++L +++ +LK EL LR+ K
Sbjct: 44 AAATISSSSPKPSVVMMSKREAELKEIRSKTTEQLQEEVVDLKGELFMLRLQKSA-RNEF 102
Query: 348 KLSKIRVVRKAILRVYIVMHQKQKENMRN--LIRKEHKKYK 386
K S R ++K + R+ V +++ + L RK +++K
Sbjct: 103 KSSDFRRMKKQVARMLTVKREREIKEGIKKRLSRKLDRQWK 143
>3tuf_A Stage III sporulation protein AH; intercellular signalling,
intercellular channel, sporulation engulfment and
signalling, intercellular space; 2.26A {Bacillus
subtilis} PDB: 3uz0_A
Length = 197
Score = 34.9 bits (79), Expect = 0.042
Identities = 20/115 (17%), Positives = 37/115 (32%), Gaps = 9/115 (7%)
Query: 3 ASPALVPSPSAPLSQSMPGQMRSVGMAPSPSGSLNTPGQAQPTSSPCPTQEDQVY----- 57
+PA + +++ G+ S T +A + D
Sbjct: 30 KAPAKQDTKEKSGTETEKGKEDGTKGTKDSSADKETSAEASEKGTVVTETADDDLFTTYR 89
Query: 58 --RDKIRQLSKYIEPLRRMIARAANDDIEKTTKMKKLLEILQSPNKRMPLETLLK 110
+ R SK E L +++ EK+ K+ + + LETL+K
Sbjct: 90 LDLEDAR--SKEREELNAIVSSDDATAKEKSEAYDKMTALSEVEGTEKQLETLIK 142
>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 = 33.0 bits (74), Expect = 0.093
Identities = 7/49 (14%), Positives = 18/49 (36%), Gaps = 26/49 (53%)
Query: 260 SVKNALESRIKKLPLKYSVSQLLDTWEMSVRQACAPTRNPTSSPSISVK 308
++K L++ +K Y+ S+P++++K
Sbjct: 21 ALKK-LQASLKL----YA---------------------DDSAPALAIK 43
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 34.3 bits (79), Expect = 0.13
Identities = 25/157 (15%), Positives = 57/157 (36%), Gaps = 22/157 (14%)
Query: 317 KDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQKQK----- 371
+L ++++E E +L K+ + ++ +R + R+ + + +
Sbjct: 928 NKIMQLQRKIDEQNKEYKSLL-EKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRV 986
Query: 372 -------ENMRNLIRKEHKKYKPLDLRPKKTRA----LRRRLTKHERKLKTLKEIRRRQA 420
+R + + + K ++ K + L L + LKT KE R+
Sbjct: 987 LSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRI 1046
Query: 421 FPPRKDLPLPVNRKRVEEPADDVPEVLQGEIARLDQR 457
K++ + +K VEE L+ ++ R
Sbjct: 1047 HDQAKEITETMEKKLVEETKQ-----LELDLNDERLR 1078
>3frt_A Charged multivesicular BODY protein 3; ESCRT, ESCRT-111, CHMP,
IST1, coiled coil, cytoplasm, lipoprotein, membrane,
myristate, phosphoprotein; 4.00A {Homo sapiens}
Length = 218
Score = 32.5 bits (73), Expect = 0.25
Identities = 11/112 (9%), Positives = 39/112 (34%), Gaps = 9/112 (8%)
Query: 50 PTQEDQVYRDKIRQLSKYIEPLRRMIARAANDDIEKTTKMKKLLEILQSPNKRMPLETLL 109
++ V + ++ K + + R I ++ + +K + Q + + ++
Sbjct: 6 KPPKELV-NEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEMI 64
Query: 110 KCEHVLEKLDFKHSSLLRDHHPLLEAVSGALQSSNANHTLQRTFGPCLEILS 161
+ + KL + + +V +++ A + + E++
Sbjct: 65 RSRKAVSKLYASKAH--------MNSVLMGMKNQLAVLRVAGSLQKSTEVMK 108
>2zvf_A Alanyl-tRNA synthetase; C-terminal, oligomerization domain,
aminoacyl-tRNA synthetase, ATP-binding, cytoplasm,
ligase, nucleotide-binding; 3.20A {Archaeoglobus
fulgidus}
Length = 171
Score = 31.8 bits (73), Expect = 0.29
Identities = 10/45 (22%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 307 VKVKCSELRTK------DKKELLKQLEELKTELANLRVAKVTGGA 345
++V+ ++L + K+ K++E LK+ +A+L + A
Sbjct: 23 LRVEPAKLPKTVERFFEEWKDQRKEIERLKSVIADLWADILMERA 67
>2x24_A Acetyl-COA carboxylase; fatty acid biosynthesis, ligase, lipid
synthesis; HET: X24; 2.40A {Bos taurus} PDB: 3ff6_A*
3tdc_A*
Length = 793
Score = 32.9 bits (75), Expect = 0.32
Identities = 18/126 (14%), Positives = 41/126 (32%), Gaps = 16/126 (12%)
Query: 307 VKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGA--ASKLSKIRVVRKAILRVYI 364
V++K + KD + +++L+ + +L +++ +L +Y
Sbjct: 570 VEIKY---QKKDLVKTIRRLDPISKKLVEQLGVSELSDTDRKELEGQLKAREDLLLPMYH 626
Query: 365 VMHQKQKENMRNLIRKEHKKY-----KPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQ 419
+ + R K + R LRR L + + +E+ +
Sbjct: 627 QVALHFADLHDTAGRMLEKGVIYDILEWKTARSFLYWRLRRLLLESQ----VKQEV--LR 680
Query: 420 AFPPRK 425
A P
Sbjct: 681 ACPELS 686
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 31.9 bits (73), Expect = 0.58
Identities = 21/150 (14%), Positives = 52/150 (34%), Gaps = 9/150 (6%)
Query: 312 SELRTKDKKELLKQLEELKTELANLRVAKVTGG-AASKLSKIRVVRKAILRVYIVMHQKQ 370
++LR ++ + E+ + A ++ +I + R+ + V + Q
Sbjct: 827 TKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALRIELKRQKKIAVLL-----Q 881
Query: 371 KENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRKDLPLP 430
K N + K + L +T + + L+ Q+ + + L
Sbjct: 882 KYNRILKKLENWATTKSVYLGSNETGDSITAVQAKLKNLE--AFDGECQSLEGQSNSDLL 939
Query: 431 VNRKRVEEPA-DDVPEVLQGEIARLDQRFK 459
++ E + VPE+ + + Q++
Sbjct: 940 SILAQLTELNYNGVPELTERKDTFFAQQWT 969
Score = 29.6 bits (67), Expect = 3.6
Identities = 10/122 (8%), Positives = 26/122 (21%), Gaps = 22/122 (18%)
Query: 356 RKAILRVYIVMHQKQKENMRNLIRKEHKKYKPL------------------DLRPKKTRA 397
R + + + + ++ + +
Sbjct: 754 RASEQTKSDYLKRANELVQWINDKQASLESRDFGDSIESVQSFMNAHKEYKKTEKPPKGQ 813
Query: 398 LRRRLTKHERKLKTLKEIRRRQAFPPRKDLPLPVNRKRVEEPADDVPEVLQGEIARLDQR 457
L L+T + +R+ F L ++ + + Q L
Sbjct: 814 EVSELEAIYNSLQTKLRLIKREPFVAPAGLT----PNEIDSTWSALEKAEQEHAEALRIE 869
Query: 458 FK 459
K
Sbjct: 870 LK 871
>3k8x_A Acetyl-COA carboxylase; transferase, carboxyltransferase, AC
tepraloxydim, ATP-binding, biotin, fatty acid
biosynthesis; HET: B89; 2.30A {Saccharomyces cerevisiae}
PDB: 1w2x_A* 3h0s_A* 3h0j_A* 3h0q_A* 1od2_A* 1od4_A*
3pgq_A* 3tvu_A* 3tv5_A* 3tvw_A* 3tz3_A* 1uyr_A* 1uys_A*
1uyt_A 1uyv_A
Length = 758
Score = 31.8 bits (72), Expect = 0.68
Identities = 24/126 (19%), Positives = 44/126 (34%), Gaps = 12/126 (9%)
Query: 307 VKVKCS-ELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIV 365
V +K E L + EL+++L+N +A SK R + +L +Y
Sbjct: 556 VGIKFRREKLLDTMNRLDDKYRELRSQLSNKSLAPEVHQQISKQLADR--ERELLPIYGQ 613
Query: 366 MHQKQKENMRNLIRKEHKKY-----KPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQA 420
+ + + R K + + R LRRRL + +K + +
Sbjct: 614 ISLQFADLHDRSSRMVAKGVISKELEWTEARRFFFWRLRRRLNEEY----LIKRLSHQVG 669
Query: 421 FPPRKD 426
R +
Sbjct: 670 EASRLE 675
>2gd5_A Charged multivesicular BODY protein 3; CHMP3, ESCRT-III, protein
transport; 2.80A {Homo sapiens} PDB: 3frv_A
Length = 179
Score = 30.8 bits (69), Expect = 0.73
Identities = 11/111 (9%), Positives = 39/111 (35%), Gaps = 9/111 (8%)
Query: 50 PTQEDQVYRDKIRQLSKYIEPLRRMIARAANDDIEKTTKMKKLLEILQSPNKRMPLETLL 109
++ V + ++ K + + R I ++ + +K + Q + + ++
Sbjct: 6 KPPKELV-NEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEMI 64
Query: 110 KCEHVLEKLDFKHSSLLRDHHPLLEAVSGALQSSNANHTLQRTFGPCLEIL 160
+ + KL + + +V +++ A + + E++
Sbjct: 65 RSRKAVSKLYASKAH--------MNSVLMGMKNQLAVLRVAGSLQKSTEVM 107
>2ebk_A RWD domain-containing protein 3; alpha+beta sandwich fold, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 128
Score = 29.8 bits (67), Expect = 1.0
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 231 IQVSIPEDYPSHPPRCTMGHEHNTTPFLTSVKNALESRIKKL 272
+ +P +YPS P ++ E T +VK L + + L
Sbjct: 60 LVFHLPVNYPSCLPGISINSEQLTRAQCVTVKEKLLEQAESL 101
Score = 29.8 bits (67), Expect = 1.0
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 490 IQVSIPEDYPSHPPRCTMGHEHNTTPFLTSVKNALESRIKKL 531
+ +P +YPS P ++ E T +VK L + + L
Sbjct: 60 LVFHLPVNYPSCLPGISINSEQLTRAQCVTVKEKLLEQAESL 101
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 30.2 bits (68), Expect = 1.7
Identities = 10/78 (12%), Positives = 26/78 (33%), Gaps = 1/78 (1%)
Query: 84 EKTTKMKKLLEILQSPNKRMPLETLLKCEHVLEKLDFKHSSLLRDHHPLLEAVSGALQSS 143
+ K+ + + IL+ + + + + L + + + S Q +
Sbjct: 5 KTVQKILEEVRILEQIGVSHD-AQIQELSEMWRVNQQFVTRLQQQLVDIRQTCSRPCQDT 63
Query: 144 NANHTLQRTFGPCLEILS 161
AN T C +++
Sbjct: 64 TANKISPITGKDCQQVVD 81
>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A
{Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A
Length = 417
Score = 30.3 bits (67), Expect = 1.9
Identities = 19/145 (13%), Positives = 45/145 (31%), Gaps = 1/145 (0%)
Query: 295 PTRNPTSSPSISVKVKCSELRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRV 354
P R + E ++ LL+ +++ L V G + K+
Sbjct: 39 PVRAQAQEQDDKIGTINEEDILANQPLLLQSIQDRLGSLVGQDSGYVGGLPKNVKEKLLS 98
Query: 355 VRKAILRVYIVMHQKQKENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKE 414
+ K + + ++ + M L K +KYKP+ + + + + + +
Sbjct: 99 L-KTLQSELFEVEKEFQVEMFELENKFLQKYKPIWEQRSRIISGQEQPKPEQIAKGQEIV 157
Query: 415 IRRRQAFPPRKDLPLPVNRKRVEEP 439
+ + N E+
Sbjct: 158 ESLNETELLVDEEEKAQNDSEEEQV 182
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 30.2 bits (68), Expect = 2.1
Identities = 34/142 (23%), Positives = 62/142 (43%), Gaps = 10/142 (7%)
Query: 320 KELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQKQKENMRNLIR 379
+L +QLEE + L++ KVT A K+ K+ I+ K+++ + +
Sbjct: 958 LDLEEQLEEEEAARQKLQLEKVT--ADGKIKKME-DDILIMEDQNNKLTKERKLLEERVS 1014
Query: 380 KEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRKDLPLPVNRKRVEEP 439
L +K + L + KHE + L E+R ++ R++L + RK E
Sbjct: 1015 DLTTN---LAEEEEKAKNLTKLKNKHESMISEL-EVRLKKEEKSRQEL-EKIKRKLEGES 1069
Query: 440 ADDVPEV--LQGEIARLDQRFK 459
+D ++ LQ +IA L +
Sbjct: 1070 SDLHEQIAELQAQIAELKAQLA 1091
Score = 28.3 bits (63), Expect = 9.1
Identities = 25/148 (16%), Positives = 58/148 (39%), Gaps = 26/148 (17%)
Query: 315 RTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAI---LRVYIVMHQKQK 371
TK++K L +++ +L T LA K L+K++ +++ L V + +K +
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEE-EKA-----KNLTKLKNKHESMISELEVRLKKEEKSR 1055
Query: 372 ENMRNLIRKEHKKYKPLDLRPKKTRALRRRLTKHERKLKTLKEIRRRQAFPPRKDLPLPV 431
+ + + RK + L ++ L+ ++ + + +L +K+ L
Sbjct: 1056 QELEKIKRKLEGESSDL---HEQIAELQAQIAELKAQLA-------------KKEEELQA 1099
Query: 432 NRKRVEEPADDVPEVLQGEIARLDQRFK 459
R+E+ +I L+
Sbjct: 1100 ALARLED-ETSQKNNALKKIRELESHIS 1126
>2gjd_A Ubiquitin-conjugating enzyme E2-18 kDa; UBC9P, SMT3,
crystallography, ligase; 1.75A {Saccharomyces
cerevisiae} PDB: 2eke_A 3ong_B
Length = 157
Score = 28.4 bits (64), Expect = 3.4
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 230 PIQVSIPEDYPSHPPRCT 247
PI V P +YPS PP+
Sbjct: 59 PITVEYPNEYPSKPPKVK 76
Score = 28.4 bits (64), Expect = 3.4
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 489 PIQVSIPEDYPSHPPRCT 506
PI V P +YPS PP+
Sbjct: 59 PITVEYPNEYPSKPPKVK 76
>3h36_A Polyribonucleotide nucleotidyltransferase; polyribonucleotide
nucleotidyltransfer structural genomics, PSI-2, protein
structure initiative; 1.80A {Streptococcus mutans}
Length = 93
Score = 27.4 bits (61), Expect = 4.0
Identities = 13/70 (18%), Positives = 28/70 (40%), Gaps = 8/70 (11%)
Query: 314 LRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQKQKEN 373
++ ++KK E +K + A+ A R++R V ++ Q +
Sbjct: 29 VQIEEKKASEIATEAVKEHV----TAEYEERYAEHEEHDRIMRD----VAEILEQMEHAE 80
Query: 374 MRNLIRKEHK 383
+R LI ++
Sbjct: 81 VRRLITEDKV 90
>2grr_A Ubiquitin-conjugating enzyme E2 I; ubiquitin, conjugation, small
ubiquitin like modifer, SMT3, ligase; 1.30A {Homo
sapiens} PDB: 2grq_A 2grn_A 2pe6_A 2gro_A 2grp_A 1u9a_A
1u9b_A 2vrr_A 2px9_B 1z5s_A 2xwu_A 3uin_A 3uio_A 3uip_A*
1kps_A 2o25_C 1a3s_A 3a4s_A 2uyz_A
Length = 161
Score = 28.0 bits (63), Expect = 5.6
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 230 PIQVSIPEDYPSHPPRCT 247
+++ +DYPS PP+C
Sbjct: 62 KLRMLFKDDYPSSPPKCK 79
Score = 28.0 bits (63), Expect = 5.6
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 489 PIQVSIPEDYPSHPPRCT 506
+++ +DYPS PP+C
Sbjct: 62 KLRMLFKDDYPSSPPKCK 79
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 28.4 bits (64), Expect = 5.6
Identities = 7/58 (12%), Positives = 18/58 (31%), Gaps = 10/58 (17%)
Query: 230 PIQVSIPE---------DYPSHPPRCTMGHEHNTTPFLTSVKNALESRIKKLPLKYSV 278
+ IP+ DY + N + + N ++ +K + ++
Sbjct: 326 TLSSEIPDHEFFTAYGPDYVLEITPSCR-PDRNEPHRIQQILNYIKGNLKHVVIEGRS 382
>3obq_A Tumor susceptibility gene 101 protein; protein transprot, ubiquitin
binding, protein transport; 1.40A {Homo sapiens} PDB:
3obs_A 3obu_A 3obx_A 3p9g_A* 3p9h_A* 2f0r_A 1kpp_A
1kpq_A 1m4p_A 1m4q_A 1s1q_A
Length = 146
Score = 27.6 bits (61), Expect = 6.0
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 230 PIQVSIPEDYPSHPPRC 246
PI + + + YP +PP C
Sbjct: 72 PICLWLLDTYPYNPPIC 88
Score = 27.6 bits (61), Expect = 6.0
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 489 PIQVSIPEDYPSHPPRC 505
PI + + + YP +PP C
Sbjct: 72 PICLWLLDTYPYNPPIC 88
>3r3q_A Suppressor protein STP22 of temperature-sensitive factor receptor
and arginine permease...; endosomal sorting, ESCRT-I;
1.45A {Saccharomyces cerevisiae} PDB: 3r42_A 1uzx_A*
Length = 162
Score = 27.6 bits (61), Expect = 6.4
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 230 PIQVSIPEDYPSHPPRCTMGHEHNTTP 256
P+ + +P YP PP ++ E+
Sbjct: 84 PVIMWVPSMYPVKPPFISINLENFDMN 110
Score = 27.6 bits (61), Expect = 6.4
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 489 PIQVSIPEDYPSHPPRCTMGHEHNTTP 515
P+ + +P YP PP ++ E+
Sbjct: 84 PVIMWVPSMYPVKPPFISINLENFDMN 110
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 28.2 bits (64), Expect = 7.3
Identities = 5/70 (7%), Positives = 18/70 (25%), Gaps = 10/70 (14%)
Query: 314 LRTKDKKELLKQLEELKTELANLRVAKVTGGAASKLSKIRVVRKAILRVYIVMHQKQKEN 373
+ + K++ + + K + K+ + + + +
Sbjct: 271 YKIQKKQDRYEAVGAAKKKAIAALGLSDENPTGYDPLKLGAI----------FKELEADV 320
Query: 374 MRNLIRKEHK 383
+R I
Sbjct: 321 VRRGILDTGL 330
>2yib_D RNA-directed RNA polymerase; transferase, reverse transcriptase,
IPNV; 3.80A {Infectious pancreatic necrosis virus}
Length = 770
Score = 28.5 bits (62), Expect = 7.4
Identities = 19/128 (14%), Positives = 37/128 (28%), Gaps = 5/128 (3%)
Query: 174 RKRVEEPADDV--PEVLQGEIARLDQRFKVSLDPTQQSGSKAIQLVCWLDDRHLPCVPPI 231
KR D + P+ + R + + L
Sbjct: 32 PKRFRPAKDPLDSPQAAAQFLKDNKYRILRPRAIPTMVELETDAALPRLRQMVEDGKLKD 91
Query: 232 QVSIPEDYPSHPPRCTMGHEHNTTPFLTSVKNALESRIKKLPLKYSVSQLLDTWE--MSV 289
VS+PE + P+ H+ + + + + +K+L + E V
Sbjct: 92 TVSVPEGTTAFYPKYYPFHKPDHDE-VGTFGAPDITLLKQLTFFLLENDFPTGPETLRQV 150
Query: 290 RQACAPTR 297
R+A A +
Sbjct: 151 REAIATLQ 158
>2ebm_A RWD domain-containing protein 1; alpha+beta sandwich fold, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 128
Score = 27.2 bits (60), Expect = 8.1
Identities = 8/76 (10%), Positives = 24/76 (31%), Gaps = 14/76 (18%)
Query: 198 RFKVSLDPTQQSGSKAIQLVCWLDDRHLPCVPPIQVSIPEDYPSHPPRCTMGHEHNTTP- 256
F +++ + +Q ++ + E YP P + + N
Sbjct: 39 SFTITVTSEAGENDETVQTT-------------LKFTYSEKYPDEAPLYEIFSQENLEDN 85
Query: 257 FLTSVKNALESRIKKL 272
++ + L + ++
Sbjct: 86 DVSDILKLLALQAEEN 101
Score = 27.2 bits (60), Expect = 8.1
Identities = 8/76 (10%), Positives = 24/76 (31%), Gaps = 14/76 (18%)
Query: 457 RFKVSLDPTQQSGSKAIQLVCWLDDRHLPCVPPIQVSIPEDYPSHPPRCTMGHEHNTTP- 515
F +++ + +Q ++ + E YP P + + N
Sbjct: 39 SFTITVTSEAGENDETVQTT-------------LKFTYSEKYPDEAPLYEIFSQENLEDN 85
Query: 516 FLTSVKNALESRIKKL 531
++ + L + ++
Sbjct: 86 DVSDILKLLALQAEEN 101
>3rcz_B SUMO-conjugating enzyme UBC9; SUMO-like domain, protein:protein
interaction, protein ligase complex; HET: DNA; 1.90A
{Schizosaccharomyces pombe}
Length = 163
Score = 27.3 bits (61), Expect = 8.4
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 230 PIQVSIPEDYPSHPPRCT 247
+ ++ PE+YP+ PP+C
Sbjct: 65 KLTMAFPEEYPTRPPKCR 82
Score = 27.3 bits (61), Expect = 8.4
Identities = 7/18 (38%), Positives = 13/18 (72%)
Query: 489 PIQVSIPEDYPSHPPRCT 506
+ ++ PE+YP+ PP+C
Sbjct: 65 KLTMAFPEEYPTRPPKCR 82
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 28.3 bits (63), Expect = 8.9
Identities = 9/55 (16%), Positives = 16/55 (29%)
Query: 174 RKRVEEPADDVPEVLQGEIARLDQRFKVSLDPTQQSGSKAIQLVCWLDDRHLPCV 228
++ + LQ RLDQ S +L + +H +
Sbjct: 185 VSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSL 239
Score = 28.3 bits (63), Expect = 8.9
Identities = 9/55 (16%), Positives = 16/55 (29%)
Query: 433 RKRVEEPADDVPEVLQGEIARLDQRFKVSLDPTQQSGSKAIQLVCWLDDRHLPCV 487
++ + LQ RLDQ S +L + +H +
Sbjct: 185 VSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSL 239
>1t98_A KICB protein, chromosome partition protein MUKF; winged helix,
helix-turn helix, domain swapped, condensin; 2.90A
{Escherichia coli} SCOP: a.4.5.65 a.47.6.1
Length = 287
Score = 27.6 bits (61), Expect = 9.5
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 9/66 (13%)
Query: 273 PLKYSVSQLLDTWEMSVRQACAPTRNPTSSPSISVKVKCSELRTKDKKELLKQLEELKTE 332
PLKYSV+++ D+ +++ R + VK ++L KD + + E L +E
Sbjct: 159 PLKYSVAEIFDSIDLTQRLMDEQQQ--------QVKDDIAQLLNKDWRAAISSCELLLSE 210
Query: 333 LA-NLR 337
+ LR
Sbjct: 211 TSGTLR 216
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
0.316 0.132 0.386
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,966,395
Number of extensions: 481716
Number of successful extensions: 1454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1425
Number of HSP's successfully gapped: 93
Length of query: 536
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 438
Effective length of database: 3,965,535
Effective search space: 1736904330
Effective search space used: 1736904330
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 (21.6 bits)
S2: 60 (27.4 bits)