RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16349
(351 letters)
>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus}
Length = 189
Score = 61.9 bits (151), Expect = 1e-11
Identities = 35/166 (21%), Positives = 71/166 (42%), Gaps = 11/166 (6%)
Query: 160 IIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGL 219
+ F ++ G A G + I+ I + F + P+I+ +L R+R
Sbjct: 35 VAVFTENASEVKIAEENGAAFAGGTSLIQKIWDDEIV---ADFYVAVPEIMPELNRLRKK 91
Query: 220 LKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLED 279
L K+ P L ++G D+ + + + G + + ++ + + I LDMS +Q+
Sbjct: 92 LNKKYPKLSRNSIGRDIPKMLELFKNGHEIKVDEERE----NFLQTKIATLDMSSDQIAA 147
Query: 280 NLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLI 325
NL+ ++ ++ +P + F+ R L S S L + L+
Sbjct: 148 NLQAVINEVCRHRPLNL---GPFVVRAFLRSSTSE-GLLLKIDPLL 189
>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A
{Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5
1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z
Length = 217
Score = 51.6 bits (124), Expect = 6e-08
Identities = 28/146 (19%), Positives = 49/146 (33%), Gaps = 16/146 (10%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERG----LVTMPTFQFVICNPKIL 210
+ + ++ S E + +V + ++ ++ ++ + N + +
Sbjct: 59 SKAKRVLVVPSS-EQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESM 117
Query: 211 ADLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHI 267
A RI G L R PT T D+ R + + K PQ Q I
Sbjct: 118 ALAGRILGPALGPRGKFPTPLPNT--ADISEYINRFKRSVLVKTKDQPQVQ------VFI 169
Query: 268 GRLDMSQEQLEDNLKRILADISTMKP 293
G DM E L +N +L I
Sbjct: 170 GTEDMKPEDLAENAIAVLNAIENKAK 195
>3iz5_A 60S ribosomal protein L1 (L1P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_A
Length = 216
Score = 47.8 bits (114), Expect = 1e-06
Identities = 18/143 (12%), Positives = 47/143 (32%), Gaps = 11/143 (7%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMP---TFQFVICNPKILA 211
+ + Q + MG+ + K + + + + + I+
Sbjct: 59 RPKMRVCMLGDA-QHVDQAEKMGLDYMDVESLKKMNKNKKLVKKLAKKYHAFLASEAIIK 117
Query: 212 DLMRIRG-LLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRL 270
+ R+ G L K + L + +K+ +KK +G L
Sbjct: 118 QIPRLLGPGLNKAGKFPTLVSHQESLEAKVNETKATVKFQLKKVLCMG------VAVGNL 171
Query: 271 DMSQEQLEDNLKRILADISTMKP 293
M ++Q++ N++ + + ++
Sbjct: 172 SMDEKQIQQNIQMSVNFLVSLLK 194
>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 = 49.3 bits (117), Expect = 1e-06
Identities = 51/348 (14%), Positives = 106/348 (30%), Gaps = 115/348 (33%)
Query: 32 YYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDY 91
Y AR + R KK + + + +++ + A
Sbjct: 126 YITARIMAK-RPFDKKSNSALFRAVGEGNAQ----LVA---------------------- 158
Query: 92 KLRIF--Q------FQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWT 143
IF Q F+E +R+ +Y +G ++ S T + ++
Sbjct: 159 ---IFGGQGNTDDYFEE----LRD-----LYQTYHVLVGDLIKFSAETLSELIR------ 200
Query: 144 HIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFV 203
++ E F G + I+ + + + + I G++ + + V
Sbjct: 201 TTLDAEKVFTQGLN--ILEWLENPSNTPDKDYLLSIPI----SCPLI--GVIQLAHY-VV 251
Query: 204 IC-----NPKILADLMRIRGLL--KKRIPT---------------LKSQTLGVDLIGIAK 241
P L ++G + + T + + V L I
Sbjct: 252 TAKLLGFTPGELRS--YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV-LFFIGV 308
Query: 242 RLQ-----TGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSK 296
R T + S+ +D E + G + +++QEQ++D + + +
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS--------HL 360
Query: 297 PEDED-FITRILLWSEPSPEKFKL-----DLSGL---IEKPKAK-ELD 334
P + I+ + + + L GL + K KA LD
Sbjct: 361 PAGKQVEISLV-----NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Score = 46.2 bits (109), Expect = 1e-05
Identities = 63/404 (15%), Positives = 114/404 (28%), Gaps = 155/404 (38%)
Query: 58 TPDSKKKKDI---YASRKVDESNLTYPEDDIYLQ--KDYKLRIF-----Q------FQEA 101
T K K+ I +R + + + + + ++ Q F+E
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE- 172
Query: 102 LAAIRETHHPTMYNLPRAFIGAT----VEISTTTHQKKVKY---MDP--W---------- 142
L + +T+H L I + E+ TT + + ++ W
Sbjct: 173 LRDLYQTYHV----LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 143 ------------------TH--IVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVAL-V 181
H + F GE RS + + H Q + A+ +
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH-----SQGLVTAVAI 283
Query: 182 GDSDT--------IKGIE-------RGLVTMPTFQFVICNPKILAD----------LM-R 215
++D+ K I R P P IL D M
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL---PPSILEDSLENNEGVPSPMLS 340
Query: 216 IRGL----LKKRI-------PTLKSQTLGV--------------DLIGIAKRLQTGIKYS 250
I L ++ + P K + + L G+ L+ K
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR-KAKAP 399
Query: 251 MKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWS 310
D Q R+ S+ +L+ + R L P + P F + +L
Sbjct: 400 SGLD---QS---------RIPFSERKLKFSN-RFL-------PVASP----FHSHLL--- 432
Query: 311 EPSPEKFKLDLSGLIEKPKAKEL-----DT--GEEIDDEPKEMA 347
P+ + DL AK++ DT G ++ ++
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Score = 37.3 bits (86), Expect = 0.008
Identities = 43/286 (15%), Positives = 78/286 (27%), Gaps = 109/286 (38%)
Query: 10 SSSVPRKV-------------FSISEVVSF--HTATPYYAARKGTRARKEGKKVRTEIKK 54
+S + V FSI ++V T ++ KG R R+ + E
Sbjct: 1638 TSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET-- 1695
Query: 55 VAWTPDSKKK-KDIYASRKVDESNLTY--PEDDIYLQKDYKLRIFQF-QEAL-----AAI 105
D K K + I+ ++ T+ + + QF Q AL AA
Sbjct: 1696 ---IVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT--------QFTQPALTLMEKAAF 1744
Query: 106 RETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGE--------- 156
+ + F G HS GE
Sbjct: 1745 EDLKSKGLIPADATFAG---------------------------HSL--GEYAALASLAD 1775
Query: 157 -----D---------RSIIAFCSQHETAAQLQDMG------VALVGDSDTIKGI-ER--- 192
++ + E M VA + ++ + ER
Sbjct: 1776 VMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK 1835
Query: 193 ---GLVT-----MPTFQFVIC-NPKILADLMRIRGLLK-KRIPTLK 228
LV + Q+V + + L + + +K ++I ++
Sbjct: 1836 RTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
Score = 33.1 bits (75), Expect = 0.18
Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 13/60 (21%)
Query: 171 AQLQDMGVALVGDSDTIKGI-ERG-LVTMPTFQFVIC-----NPKILADLM------RIR 217
+Q Q MG+ L S + + R T+ F I NP L RIR
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR 1685
>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 = 48.3 bits (114), Expect = 2e-06
Identities = 45/370 (12%), Positives = 103/370 (27%), Gaps = 119/370 (32%)
Query: 68 YASRKVDESNLTYPEDDIYLQKDYKLRIF---QFQEALAAIRETHHPTMYNLPRAF-IGA 123
+ SR SN+ I + R+ ++ L + + +N AF +
Sbjct: 213 WTSRSDHSSNIKLRIHSI---QAELRRLLKSKPYENCLLVLLNVQNAKAWN---AFNLSC 266
Query: 124 TVEISTTTHQKKV-KYMDP--WTHIVEVEHS--FDHGEDRSIIAFCSQHET------AAQ 172
+ + TT K+V ++ THI HS E +S++
Sbjct: 267 KILL--TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324
Query: 173 LQDMGVALVGDS-----DTIKG------------IERGL--------------------- 194
++++ +S T IE L
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 195 --VTMPTFQFVICNPK------ILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTG 246
+ + + ++ L + L++K+ K T+ + I + +++
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHK-YSLVEKQ---PKESTISIPSIYLELKVKLE 440
Query: 247 IKYSM-----------KKDPQE-----QDFGYSDFHIGR--LDMSQEQLEDNLKRILADI 288
+Y++ K + Y HIG ++ + + + D
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 289 STMK-----------PPSKPED--------EDFITRILLWSEPSPEKFKLDLSGLIEKP- 328
++ + + +I ++P E+ + + K
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD----NDPKYERLVNAILDFLPKIE 556
Query: 329 ----KAKELD 334
+K D
Sbjct: 557 ENLICSKYTD 566
Score = 33.7 bits (76), Expect = 0.097
Identities = 32/214 (14%), Positives = 69/214 (32%), Gaps = 38/214 (17%)
Query: 144 HIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGD----SDTIKGIERGLVTMPT 199
HI+ + + G R S+ E Q + + L + IK +R +M T
Sbjct: 53 HIIMSKDA-VSGTLRLFWTLLSKQEEMVQ-KFVEEVLRINYKFLMSPIKTEQRQ-PSMMT 109
Query: 200 FQFVICNPKILAD--------------LMRIRGLLKKRIPTLKSQTLGVD-LIGIAKRLQ 244
++ ++ D +++R L + P ++ + +D ++G K
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP---AKNVLIDGVLGSGK--T 164
Query: 245 TGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFIT 304
+ DF I L++ + + +L + P+ D +
Sbjct: 165 WVALDVCLSYKVQCKM---DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 305 RILLWSEPSPEKFKLDLSGLIEKPKAKE----LD 334
I L + +L L++ + L
Sbjct: 222 NIKL----RIHSIQAELRRLLKSKPYENCLLVLL 251
Score = 32.1 bits (72), Expect = 0.36
Identities = 22/122 (18%), Positives = 39/122 (31%), Gaps = 42/122 (34%)
Query: 249 YSMKKDPQEQDFGYSD--------FHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDE 300
+ M + E + Y D F + + ++D K IL SK E +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAF---VDNFDCKDVQDMPKSIL---------SKEEID 52
Query: 301 DFI--------TRILLWS-----EPSPEKF-----KLDLSGLIEK----PKAKELDTGEE 338
I T L W+ E +KF +++ L+ + + T
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 339 ID 340
I+
Sbjct: 113 IE 114
>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins,
ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A
3izs_A 1s1i_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B
3jyw_A
Length = 217
Score = 45.5 bits (108), Expect = 7e-06
Identities = 26/146 (17%), Positives = 52/146 (35%), Gaps = 17/146 (11%)
Query: 155 GEDRSIIAFCSQ-HETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKIL 210
+ SI F A+ GV + D K + + + I + ++
Sbjct: 60 RPNMSICIFGDAFDVDRAK--SCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLI 117
Query: 211 ADLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHI 267
+ R+ G L K PT S DL G +++ IK+ +KK +
Sbjct: 118 KQVPRLLGPQLSKAGKFPTPVSHN--DDLYGKVTDVRSTIKFQLKKVLCLA------VAV 169
Query: 268 GRLDMSQEQLEDNLKRILADISTMKP 293
G ++M ++ L + + + ++
Sbjct: 170 GNVEMEEDVLVNQILMSVNFFVSLLK 195
>4f9t_A 50S ribosomal protein L1; rossman fold, RNA; HET: MPD; 1.46A
{Thermus thermophilus} PDB: 3u4m_A 1eg0_N 1vsp_A 2hgj_C
2hgq_C 2hgu_C 1vsa_A 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C
1giy_C 2hw8_A 2j01_C 2j03_C 2jl6_C 2jl8_C 2om7_K* 2v47_C
...
Length = 229
Score = 43.1 bits (102), Expect = 5e-05
Identities = 33/149 (22%), Positives = 61/149 (40%), Gaps = 22/149 (14%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
G+ ++A + E + ++ G VG + I+ I G + F V+ P D+M
Sbjct: 70 GKQVRVLAIA-KGEKIKEAEEAGADYVGGEEIIQKILDGWMD---FDAVVATP----DVM 121
Query: 215 RIRGLLKKRI-------PTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFH 266
G RI P K+ T+G ++ I + ++ G I++ K G
Sbjct: 122 GAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKT------GAIHAP 175
Query: 267 IGRLDMSQEQLEDNLKRILADISTMKPPS 295
+G+ E+L DN++ + + KP
Sbjct: 176 VGKASFPPEKLADNIRAFIRALEAHKPEG 204
>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein,
translation repressor, ribosome; 1.85A
{Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB:
1cjs_A 1u63_A 1dwu_A
Length = 219
Score = 42.0 bits (99), Expect = 1e-04
Identities = 24/149 (16%), Positives = 56/149 (37%), Gaps = 23/149 (15%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKILA 211
G++ I + + A Q +++G+ ++ + + + F I
Sbjct: 55 GKEAKIAVIGTG-DLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQA---- 109
Query: 212 DLMRIRG-----LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSD 264
DLM + G +L R +P ++ + +RL+ + + + Y
Sbjct: 110 DLMPLIGRYMGVILGPRGKMPKPVPAN--ANIKPLVERLKKTVVINTRDK------PYFQ 161
Query: 265 FHIGRLDMSQEQLEDNLKRILADISTMKP 293
+G M+ EQ+ DN++ +L ++
Sbjct: 162 VLVGNEKMTDEQIVDNIEAVLNVVAKKYE 190
>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein,
nucleotide-binding, protein biosynthesis, translation,
zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB:
3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C*
3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2
Length = 234
Score = 41.5 bits (98), Expect = 2e-04
Identities = 37/148 (25%), Positives = 62/148 (41%), Gaps = 21/148 (14%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
G + F Q A + G LVG D I++G + F VI +P D M
Sbjct: 70 GRSVRVAVFT-QGANAEAAKAAGAELVGMEDLADQIKKGEMN---FDVVIASP----DAM 121
Query: 215 RIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
R+ G L + +P K T+ ++ K + G ++Y K+ G I
Sbjct: 122 RVVGQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKN------GIIHTTI 175
Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
G++D ++L++NL+ +L + KP
Sbjct: 176 GKVDFDADKLKENLEALLVALKKAKPTQ 203
>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent
of ribosome, rRNA BI regulation of translation,
translation, ribosomal RNA; 2.10A {Aquifex aeolicus}
Length = 242
Score = 40.8 bits (96), Expect = 3e-04
Identities = 31/148 (20%), Positives = 61/148 (41%), Gaps = 20/148 (13%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
G+ ++ F + E A + ++ G VG + I I + T F I P ++M
Sbjct: 73 GKPIKVVVFA-EGEYAKKAEEAGADYVGGDELINKILKEEWT--DFDVAIATP----EMM 125
Query: 215 RIRGLLKKRI------PTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
L + + P+ K+ T+ ++ K + G +++ + K G +
Sbjct: 126 PKVAKLGRILGPRGLMPSPKTGTVTTNVEQAIKDAKRGRVEFKVDKA------GNVHMPV 179
Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
G++ +E+L DNL + + KPP
Sbjct: 180 GKISFEKEKLIDNLYAAIDAVVRAKPPG 207
>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 212
Score = 40.4 bits (95), Expect = 3e-04
Identities = 27/147 (18%), Positives = 58/147 (39%), Gaps = 19/147 (12%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKILA 211
G++ +I+ F ETA + +++ ++ + + + F I ++
Sbjct: 55 GQETTIVVFAEG-ETALRAEEVADDVLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQ 113
Query: 212 DLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFH-- 266
D+ R G +L R +P D++ + +R++ ++ + FH
Sbjct: 114 DIGRYLGTVLGPRGKMPEPLDPD--DDVVEVIERMKNTVQLRSGERRT--------FHTR 163
Query: 267 IGRLDMSQEQLEDNLKRILADISTMKP 293
+G DMS E + DN+ IL +
Sbjct: 164 VGAEDMSAENIADNIDVILRRLHADLE 190
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 39.9 bits (93), Expect = 9e-04
Identities = 30/148 (20%), Positives = 58/148 (39%), Gaps = 21/148 (14%)
Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
G+ I Q + + + G +VG + I+ I+ G + F +I D+M
Sbjct: 184 GKTVKIAVLA-QGDKIDEAKAAGADIVGGEELIEQIKGGFMD---FDKLIATS----DMM 235
Query: 215 RIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
L + +PT K+ T+ ++ + + G +++ + K G
Sbjct: 236 AKVASLGRILGPRGLMPTPKAGTVTPNVAQAVEEFKKGKVEFRVDKT------GIVHIPF 289
Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
G+L+ +E L NL + + T KP
Sbjct: 290 GKLNFEEEDLLINLFATIKSVETNKPTG 317
>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 = 32.2 bits (72), Expect = 0.13
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 42 RKEGKKVRTEIKKVAWTPDSKKKKDIYAS 70
++ KK++ +K A DS I A+
Sbjct: 19 KQALKKLQASLKLYA--DDSAPALAIKAT 45
>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A
2vpl_A
Length = 137
Score = 30.3 bits (69), Expect = 0.40
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 267 IGRLDMSQEQLEDNLKRILADISTMKPPS 295
+G+ E+L DN++ + + KP
Sbjct: 84 VGKASFPPEKLADNIRAFIRALEAHKPEG 112
>3hxa_A Pterin-4-alpha-carbinolamine dehydratase; alpha and beta structure,
lyase, nucleus, tetrahydrobiopteri biosynthesis; 1.80A
{Rattus norvegicus} PDB: 1dco_A 1dch_A 1dcp_A* 1f93_A
Length = 104
Score = 29.6 bits (67), Expect = 0.51
Identities = 13/70 (18%), Positives = 22/70 (31%), Gaps = 15/70 (21%)
Query: 71 RKVDESNLTYPEDDIYLQKDYKLRIFQFQEALA--------AIRETHHPTMYNLPRAFIG 122
+ E + K + + F A A + HHP +N +
Sbjct: 18 PNLRAVGWNELEGRDAIFKQFHFK--DFNRAFGFMSRVALQAEKLDHHPEWFN-----VY 70
Query: 123 ATVEISTTTH 132
V I+ +TH
Sbjct: 71 NKVHITLSTH 80
>1ru0_A DCOH-like protein dcohm; alpha and beta structure, lyase; 1.60A
{Mus musculus} SCOP: d.74.1.1
Length = 105
Score = 29.3 bits (66), Expect = 0.66
Identities = 14/60 (23%), Positives = 27/60 (45%), Gaps = 11/60 (18%)
Query: 79 TYPEDDIYLQKDYKLRIFQ----F--QEALAAIRETHHPTMYNLPRAFIGATVEISTTTH 132
+ + + K++ + F F + AL A + HHP +N + V+I+ T+H
Sbjct: 28 SELSERDAIYKEFSFKNFNQAFGFMSRVALQAEKMNHHPEWFN-----VYNKVQITLTSH 82
>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein
biogenesis, GET PAT GET5 binding, protein transport;
1.98A {Chaetomium thermophilum}
Length = 336
Score = 30.4 bits (68), Expect = 0.83
Identities = 6/46 (13%), Positives = 20/46 (43%)
Query: 270 LDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPE 315
+ ++++ + L + P +P + F+ ++ WS+ +
Sbjct: 85 FRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGD 130
>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored
protein, protein binding GET4; 1.99A {Saccharomyces
cerevisiae} PDB: 3lku_A
Length = 312
Score = 30.4 bits (68), Expect = 0.88
Identities = 11/41 (26%), Positives = 21/41 (51%)
Query: 270 LDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWS 310
D+++ +++D L + PS+P +D IT + WS
Sbjct: 83 YDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWS 123
>2ebb_A Pterin-4-alpha-carbinolamine dehydratase; coenzyme biosyntheses,
GK1984, structural genomics, NPPSFA; 1.60A {Geobacillus
kaustophilus}
Length = 101
Score = 28.4 bits (64), Expect = 1.3
Identities = 11/60 (18%), Positives = 23/60 (38%), Gaps = 17/60 (28%)
Query: 82 EDDIYLQKDYKLRIFQ----FQEALAAI--RETHHPTM---YNLPRAFIGATVEISTTTH 132
D+ ++ K Y+ + + F +AAI HHP + Y + + ++
Sbjct: 21 ADERWIVKKYRFQDYLQGIEFVRRIAAISENANHHPFISIDYK--------LITVKLSSW 72
>1usm_A DCOH, hepatocyte nuclear factor 1-alpha; transcriptional
stimulator, dimerization cofactor, dehydratase,
4A-carbinolamine dehydratase; 1.2A {Thermus
thermophilus} SCOP: d.74.1.1 PDB: 1uso_A
Length = 80
Score = 27.9 bits (63), Expect = 1.4
Identities = 16/62 (25%), Positives = 22/62 (35%), Gaps = 21/62 (33%)
Query: 82 EDDIYLQKDYKLRIFQFQEALA--------AIRETHHPTM---YNLPRAFIGATVEISTT 130
E+ L K + F+EAL A RE HHP + + V +
Sbjct: 7 ENLKRLVKTFAFP--NFREALDFANRVGALAERENHHPRLTVEWG--------RVTVEWW 56
Query: 131 TH 132
TH
Sbjct: 57 TH 58
>3jst_A Putative pterin-4-alpha-carbinolamine dehydratase; lyase,
structural genomics, seattle structural genomics CENT
infectious disease, ssgcid; 2.10A {Brucella melitensis}
Length = 97
Score = 28.0 bits (63), Expect = 1.4
Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 15/59 (25%)
Query: 82 EDDIYLQKDYKLRIFQFQEALA--------AIRETHHPTMYNLPRAFIGATVEISTTTH 132
+ + + +K + F A A + HHP +N V+++ TH
Sbjct: 25 DGREAITRSFKFK--DFSTAFGFMAQAALYAEKLDHHPEWFN-----AYNRVDVTLATH 76
>2v6u_A Pterin-4A-carbinolamine dehydratase; lyase, enzyme; 1.6A
{Toxoplasma gondii} PDB: 2v6s_A 2v6t_A*
Length = 104
Score = 28.0 bits (63), Expect = 1.8
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 21/62 (33%)
Query: 82 EDDIYLQKDYKLRIFQFQEALA--------AIRETHHPTM---YNLPRAFIGATVEISTT 130
+ + +++ ++ F EA A + HHP YN TV++ +
Sbjct: 28 DGHLSIKRKFQFS--DFNEAWGFMSRVALYADKVDHHPNWYNVYN--------TVDVELS 77
Query: 131 TH 132
TH
Sbjct: 78 TH 79
>2a1x_A Phytanoyl-COA dioxygenase; beta jelly roll, double-stranded
beta-helix, structural GENO structural genomics
consortium, SGC, oxidoreductase; HET: AKG; 2.50A {Homo
sapiens} SCOP: b.82.2.9
Length = 308
Score = 29.1 bits (65), Expect = 2.2
Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 11 SSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYAS 70
+ RK S F +A +Y KGT K+V K +S KDI+
Sbjct: 241 TQGFRKAISCH----FASADCHYIDVKGTSQENIEKEVVGIAHKFFGAENSVNLKDIWMF 296
Query: 71 R 71
R
Sbjct: 297 R 297
>3g1p_A Protein PHNP; C-P lyase, phosphodiesterase, phosphonate
utilization, alkylphosphonate uptake; 1.40A {Escherichia
coli} PDB: 3p2u_A
Length = 258
Score = 28.8 bits (65), Expect = 2.4
Identities = 8/69 (11%), Positives = 18/69 (26%), Gaps = 17/69 (24%)
Query: 52 IKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHP 111
+VAW D+ PE + ++ + ++ + R
Sbjct: 156 HSRVAWLSDTA----------------GLPEKTLKFLRNNQPQVM-VMDCSHPPRADAPR 198
Query: 112 TMYNLPRAF 120
+L
Sbjct: 199 NHCDLNTVL 207
>1muw_A Xylose isomerase; atomic resolution, disorder; 0.86A {Streptomyces
olivochromogenes} SCOP: c.1.15.3 PDB: 1s5m_A* 1s5n_A*
2gyi_A* 1xyb_A* 1xyc_A* 1xya_A* 1xyl_A 1xym_A* 1dxi_A
3gnx_A* 1gw9_A* 1xib_A 1xic_A* 1xid_A* 1xie_A* 1xif_A*
1xig_A* 1xih_A* 1xii_A* 1xij_A ...
Length = 386
Score = 28.7 bits (63), Expect = 3.2
Identities = 14/92 (15%), Positives = 26/92 (28%), Gaps = 16/92 (17%)
Query: 87 LQKDYKLRIFQFQEALAAIRET----------------HHPTMYNLPRAFIGATVEISTT 130
KD ++ + + +EA + E + P L A I
Sbjct: 146 AAKDVRVALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTVGHALAFIERL 205
Query: 131 THQKKVKYMDPWTHIVEVEHSFDHGEDRSIIA 162
+ H +F HG +++ A
Sbjct: 206 ERPELYGVNPEVGHEQMAGLNFPHGIAQALWA 237
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 3.3
Identities = 10/51 (19%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 43 KEGKKVRTEIKKVA------WTP--DSKKKKDIYASRKVDESNLTYPEDDI 85
K + E ++ A W + +K+ +R D++ P+ DI
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADI 153
>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}
Length = 181
Score = 28.1 bits (62), Expect = 3.4
Identities = 15/76 (19%), Positives = 27/76 (35%), Gaps = 15/76 (19%)
Query: 167 HETAAQLQDMGVALVGDSDTIKG------IERG---------LVTMPTFQFVICNPKILA 211
H + MGV + G+++ K I+RG + Q + P +
Sbjct: 8 HANFLVIDKMGVLITGEANIGKSELSLALIDRGHQLVCDDVIDLKQENNQLIGSCPSVAN 67
Query: 212 DLMRIRGLLKKRIPTL 227
+ I G+ +P L
Sbjct: 68 GYILITGIGIIDVPKL 83
>1q9u_A Uncharacterized protein APC35924; structural genomics, Zn-binding
proteins, PSI, protein structure initiative; HET: CSW
CME; 1.80A {Geobacillus stearothermophilus} SCOP:
d.129.7.1
Length = 130
Score = 27.7 bits (61), Expect = 3.5
Identities = 12/86 (13%), Positives = 30/86 (34%), Gaps = 12/86 (13%)
Query: 142 WTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQ 201
+ + V+V + +R L+ G ++ + ++ + T
Sbjct: 5 FHYTVDVSTGMNETIER----------LEESLKQEGFGVLWQFSVTEKLQEKGLDFSTPM 54
Query: 202 --FVICNPKILADLMRIRGLLKKRIP 225
+CNP+ A ++ L+ +P
Sbjct: 55 VILEVCNPQEAARVLNENLLVGYFLP 80
>1j3m_A The conserved hypothetical protein TT1751; X-RAY crystallography,
structural genomics, riken structural
genomics/proteomics initiative; 2.00A {Thermus
thermophilus} SCOP: d.129.7.1
Length = 129
Score = 26.5 bits (58), Expect = 7.8
Identities = 20/150 (13%), Positives = 45/150 (30%), Gaps = 25/150 (16%)
Query: 142 WTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGI-ERGLVTMPTF 200
++ + + A L++ G ++ + D + + + P +
Sbjct: 2 TGMRKTLKATLAEARAQ----------VEAALKEEGFGILTEIDVAATLKAKLGLEKPPY 51
Query: 201 Q-FVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDL-IGIAKRLQTGIKYSMKKDPQEQ 258
CNP + A + +G+ L + R + +DP+E
Sbjct: 52 LILGACNPNLAARALEA------------LPEIGLLLPCNVVLREAEEGVEVLIQDPKEM 99
Query: 259 DFGYSDFHIGRLDMSQEQLEDNLKRILADI 288
+ L E+ L R L+ +
Sbjct: 100 FRVLPEATQRALAPVAEEARTRLSRALSRL 129
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.134 0.381
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,527,509
Number of extensions: 346806
Number of successful extensions: 805
Number of sequences better than 10.0: 1
Number of HSP's gapped: 794
Number of HSP's successfully gapped: 43
Length of query: 351
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 257
Effective length of database: 4,077,219
Effective search space: 1047845283
Effective search space used: 1047845283
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.1 bits)