RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 023905
(275 letters)
>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 259
Score = 328 bits (844), Expect = e-114
Identities = 194/254 (76%), Positives = 216/254 (85%), Gaps = 3/254 (1%)
Query: 25 RPTRKASILASPKQPLIFTTKRTTTH---IVSMSYEAGIGVMGTKLGMMSYFEPDGTVVP 81
R + P + L + +S S EAG+GVM TKLGMMS+FE GTVVP
Sbjct: 6 LTLRSPFLHRLPLRALKTHKPTSLHISKSSISASLEAGVGVMATKLGMMSFFEESGTVVP 65
Query: 82 VTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEF 141
VTVVGFREGNIVTQ+KTEATDGY+AVQ+GYRRVRD+KLTKPE+GHL+KSG+IP+RHLQEF
Sbjct: 66 VTVVGFREGNIVTQIKTEATDGYNAVQVGYRRVRDRKLTKPEMGHLEKSGIIPLRHLQEF 125
Query: 142 RLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQ 201
RLQSIDGFE QKL F E+F EGDLVDVSGTTIGKGFQGGIKRHNF+RG MTHGSKSHRQ
Sbjct: 126 RLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQ 185
Query: 202 LGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLR 261
LGSIGAGTTPGRVYKGKKMPGRMGGT RKIRKLKIVKID+ L ++MIKGA+PGKPGNLLR
Sbjct: 186 LGSIGAGTTPGRVYKGKKMPGRMGGTKRKIRKLKIVKIDDQLNIIMIKGALPGKPGNLLR 245
Query: 262 VAPAKIVGKNIPKN 275
+APAKIVGKNIPK+
Sbjct: 246 IAPAKIVGKNIPKS 259
>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer
RNA, 23S ribosomal subunit, ribosome recycling factor,
RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B
1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D
2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D
2qbg_D 2qbi_D* 2qbk_D* 2qov_D ...
Length = 209
Score = 297 bits (762), Expect = e-103
Identities = 97/207 (46%), Positives = 131/207 (63%), Gaps = 3/207 (1%)
Query: 60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
IG++G K+GM F DG +PVTV+ E N VTQVK A DGY A+Q+ + ++
Sbjct: 2 IGLVGKKVGMTRIFTEDGVSIPVTVIEV-EANRVTQVKDLANDGYRAIQVTTGAKKANRV 60
Query: 120 TKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQ 179
TKPE GH K+G+ R L EFRL + F GQ ++ E +F + VDV+GT+ GKGF
Sbjct: 61 TKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVE-LFADVKKVDVTGTSKGKGFA 119
Query: 180 GGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVK 238
G +KR NFR THG S SHR GSIG TPG+V+KGKKM G+MG ++ L +V+
Sbjct: 120 GTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERVTVQSLDVVR 179
Query: 239 IDNDLRVVMIKGAVPGKPGNLLRVAPA 265
+D + ++++KGAVPG G+ L V PA
Sbjct: 180 VDAERNLLLVKGAVPGATGSDLIVKPA 206
>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E
2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E
2wrj_E 2wrl_E 2wro_E 2wrr_E ...
Length = 206
Score = 282 bits (723), Expect = 7e-97
Identities = 87/211 (41%), Positives = 119/211 (56%), Gaps = 8/211 (3%)
Query: 61 GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
G++G K+GM F D VPVTV+ V Q +T DGY AVQ+G+ K++
Sbjct: 3 GILGVKVGMTRIFR-DDRAVPVTVILA-GPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
+P GH K+G+ P+R L+E R + G + E IF G+ VDV+GT+ G+GF G
Sbjct: 61 RPLKGHFAKAGVEPVRILREIRDFN----PEGDTVTVE-IFKPGERVDVTGTSKGRGFAG 115
Query: 181 GIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
+KR NF G +HG K HR GSIG TPGRVYKGKKM G G + L++V +
Sbjct: 116 VMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDV 175
Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAKIVGK 270
+ ++++KGAVPG G L+ V K K
Sbjct: 176 IPEENLLLVKGAVPGPNGGLVIVRETKKAAK 206
>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B*
1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B
3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E
1vou_E 1vow_E 1voy_E ...
Length = 211
Score = 280 bits (719), Expect = 4e-96
Identities = 88/207 (42%), Positives = 125/207 (60%), Gaps = 8/207 (3%)
Query: 61 GVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLT 120
G++GTK+GM ++ + +PVTVV + Q KT TDGY+AVQIGY ++K+
Sbjct: 3 GILGTKIGMTQIWK-NDRAIPVTVVLA-GPCPIVQRKTAQTDGYEAVQIGYAPKAERKVN 60
Query: 121 KPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQG 180
KP GH K+G+ P R L+EFR G + + IF EG+ +D +GT+ GKG QG
Sbjct: 61 KPMQGHFAKAGVAPTRILREFRGF----APDGDSVNVD-IFAEGEKIDATGTSKGKGTQG 115
Query: 181 GIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKI 239
+KR NF G +HG K HR+ GSIG TPGRVYKGK+M G MG ++ L++V+I
Sbjct: 116 VMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEI 175
Query: 240 DNDLRVVMIKGAVPGKPGNLLRVAPAK 266
++++KGA+PG G L+ + A
Sbjct: 176 RAGENLILVKGAIPGANGGLVVLRSAA 202
>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial
ribosome, large ribosomal subunit, ribosomal R ribosome;
12.10A {Bos taurus}
Length = 211
Score = 278 bits (713), Expect = 3e-95
Identities = 64/211 (30%), Positives = 104/211 (49%), Gaps = 6/211 (2%)
Query: 60 IGVMGTKLGMMSYFEPDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKL 119
+G++ KLGMM + DG VT++ + V + ++ + +
Sbjct: 2 VGLIALKLGMMPLWTKDGQKHVVTLLQV-QDCHVLKYTSKENCNGKMATLSVGGKTVSRF 60
Query: 120 TKPE--LGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKG 177
K L ++ GL P + ++ F + + G L F G VDV+ TIGKG
Sbjct: 61 RKATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPLYAA-HFRPGQYVDVTAKTIGKG 119
Query: 178 FQGGIKRHNFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKI 236
FQG +KR F+ THG +K+HR+ G++ G GRV+ G KMPG+MG R LK+
Sbjct: 120 FQGVMKRWGFKGQPATHGQTKTHRRPGAVATGD-IGRVWPGTKMPGKMGNIYRTEYGLKV 178
Query: 237 VKIDNDLRVVMIKGAVPGKPGNLLRVAPAKI 267
+I+ ++ + G+VPG L++V +K+
Sbjct: 179 WRINTKHNIIYVNGSVPGHKNCLVKVKDSKL 209
>1vq8_B 50S ribosomal protein L3P; 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: b.43.3.2 PDB: 1vq4_B*
1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B*
1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B*
1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ...
Length = 338
Score = 137 bits (346), Expect = 1e-38
Identities = 52/277 (18%), Positives = 82/277 (29%), Gaps = 74/277 (26%)
Query: 61 GVMGTKLGMMSYFEPDG----------TVVPVTVVGFREGNIVTQVKTEATDGYDAVQ-- 108
G G K GM + VPVTV+ ++ Y
Sbjct: 41 GFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIET-PPMRAVALRAYEDTPYGQRPLT 99
Query: 109 --------------------------------------IGYRRVRDKKLTKPELGHLQKS 130
+G R+ + +K
Sbjct: 100 EVWTDEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKK 159
Query: 131 GLIPMRHLQEFRLQSI-----DGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRH 185
+ + + D E G + A +IF G+ DV+G T GKG QG +KR
Sbjct: 160 PDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRW 219
Query: 186 NFRRGAMTHG-SKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLR 244
++ H R++G++G P RV G+ G R +++ I
Sbjct: 220 GVQKRKGKHARQGWRRRIGNLGP-WNPSRVRSTVPQQGQTGYHQRTELNKRLIDIGEGDE 278
Query: 245 V----------------VMIKGAVPGKPGNLLRVAPA 265
++KG+VPG L+R PA
Sbjct: 279 PTVDGGFVNYGEVDGPYTLVKGSVPGPDKRLVRFRPA 315
>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 = 114 bits (287), Expect = 8e-30
Identities = 38/212 (17%), Positives = 74/212 (34%), Gaps = 45/212 (21%)
Query: 97 KTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMR----HLQEFRLQSIDGFEA- 151
K ++ G +Q+ +++ + H Q + ++ HL E ++ +
Sbjct: 136 KYDSDAGKKEIQLQLEKMKKYATIVRVIAHTQIRKMKGLKQKKAHLMEIQVNGGTIADKV 195
Query: 152 -------GQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGS 204
+++ E +F + ++VD+ G T GKG++G + R R + R++
Sbjct: 196 DYGYKFFEKEVPVEAVFQKDEMVDIIGVTKGKGYEGVVTRWGVTRLPRKT-HRGLRKVAC 254
Query: 205 IGAGTTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRV------------------- 245
IGA P RV G+ G R KI K+ +
Sbjct: 255 IGA-WHPARVSYTVARAGQNGYHHRTEMNKKIYKMGKSGQESHEACTEFDRTEKDITPMG 313
Query: 246 ------------VMIKGAVPGKPGNLLRVAPA 265
+MIKG G ++ + +
Sbjct: 314 GFPHYGVVKGDYLMIKGCCVGPKKRVVTLRQS 345
>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_B 4a1c_B 4a1e_B
Length = 391
Score = 108 bits (271), Expect = 2e-27
Identities = 36/213 (16%), Positives = 69/213 (32%), Gaps = 35/213 (16%)
Query: 89 EGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDG 148
+ + V++ K + + H+ + + + ++
Sbjct: 138 DQKAQDLLLKRIEKYCSVVRVIAHTNMSKLNLRQKKNHILEIQVNGGKVAEKVA--FAKS 195
Query: 149 FEAGQKLAFEEIFNEGDLVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAG 208
+ + IF E +++DV G T GKGF G IKR + + +R++G IGA
Sbjct: 196 LLEKEVK-VDSIFAENEMLDVLGVTKGKGFAGVIKRFGVKHLQKKT-HRGYRKVGCIGAW 253
Query: 209 TTPGRVYKGKKMPGRMGGTTRKIRKLKIVKIDNDLRV----------------------- 245
P R+ G++G R K+ ++
Sbjct: 254 -HPSRIRFTVPRAGQLGYHHRTETNKKVYRVGKGDDASNASTAGDVTDKAITPLGGFPHY 312
Query: 246 -------VMIKGAVPGKPGNLLRVAPAKIVGKN 271
+MIKG G +L + + I +
Sbjct: 313 GVVKNDFIMIKGCCVGPKKRVLTLRKSIIPQTH 345
>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B
3izc_C 3izs_C 1s1i_C 3jyw_C
Length = 387
Score = 104 bits (261), Expect = 3e-26
Identities = 31/183 (16%), Positives = 59/183 (32%), Gaps = 38/183 (20%)
Query: 113 RVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGT 172
R K L +Q +G + R + +A + +F + +++D
Sbjct: 167 RKTPLAQKKAHLAEIQLNGGSISEKVDWAR------EHFEKTVAVDSVFEQNEMIDAIAV 220
Query: 173 TIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTTRKIR 232
T G GF+G R ++ + R++ IGA P V G+ G +R
Sbjct: 221 TKGHGFEGVTHRWGTKKLPRKT-HRGLRKVACIGAW-HPAHVMWSVARAGQRGYHSRTSI 278
Query: 233 KLKIVKIDNDLR------------------------------VVMIKGAVPGKPGNLLRV 262
KI ++ +M+KG +PG ++ +
Sbjct: 279 NHKIYRVGKGDDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVTL 338
Query: 263 APA 265
+
Sbjct: 339 RKS 341
>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 403
Score = 100 bits (249), Expect = 2e-24
Identities = 38/197 (19%), Positives = 65/197 (32%), Gaps = 48/197 (24%)
Query: 106 AVQIGYRRVRDKKLTKPELGHLQKSGLIPMRHLQEFRLQSIDGFEAGQKLAFEEIFNEGD 165
Q+ +R KK E+ + + +E Q + ++F + +
Sbjct: 165 HTQMRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQVP---------VSQVFGQDE 215
Query: 166 LVDVSGTTIGKGFQGGIKRHNFRRGAMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMG 225
++DV G T GKG++G R + ++ + R++ IGA P RV G+ G
Sbjct: 216 MIDVIGVTKGKGYKGVTSRWHTKKLPRKT-HRGLRKVACIGAWH-PARVAFSVARAGQKG 273
Query: 226 GTTRKIRKLKIVKIDNDLRV-------------------------------------VMI 248
R KI KI + VM+
Sbjct: 274 YHHRTEINKKIYKIGQGYLIKDGKLIKNNASTDYDLSDKSINPLGGFVHYGEVTNDFVML 333
Query: 249 KGAVPGKPGNLLRVAPA 265
KG V G +L + +
Sbjct: 334 KGCVVGTKKRVLTLRKS 350
>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 = 0.066
Identities = 30/136 (22%), Positives = 42/136 (30%), Gaps = 47/136 (34%)
Query: 2 PISSLSPIGHCP---PSLSL------KCNFPFRP---------TRKASILASPKQ----- 38
P++S P H P+ L K N F T S L
Sbjct: 422 PVAS--PF-HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISER 478
Query: 39 --PLIFT--------TKRTTTHIVSMSYEAGIGVMGTKLGMMSYFEPDGTVVPVTVVGFR 88
I T+ THI+ G G + LG++++ DGT V V V G
Sbjct: 479 IVDCIIRLPVKWETTTQFKATHILDF----GPGGA-SGLGVLTHRNKDGTGVRVIVAGTL 533
Query: 89 EGNIVTQVKTEATDGY 104
+ N G+
Sbjct: 534 DINPDDDY------GF 543
Score = 28.1 bits (62), Expect = 3.8
Identities = 31/164 (18%), Positives = 49/164 (29%), Gaps = 61/164 (37%)
Query: 38 QPLIFTTK-------RTTTHIVSMSYEAG--IG------VMGTKLGMMSYFEPDGTVVPV 82
QP + + ++ I + + AG +G + +MS E V
Sbjct: 1733 QPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLA---DVMS-IE-SL----V 1783
Query: 83 TVVGFREGNIVTQVKTEATDGYDAVQIGYRRVRDKKLTKPELGHLQKS--GLIPMRHLQE 140
VV +R G + AV RD ELG + P R
Sbjct: 1784 EVVFYR-GMTM----------QVAVP------RD------ELGRSNYGMIAINPGRVAAS 1820
Query: 141 FRLQSID------GFEAGQKLAFEEI--FN-EGDLVDVSGTTIG 175
F +++ G G + EI +N E +G
Sbjct: 1821 FSQEALQYVVERVGKRTGWLV---EIVNYNVENQQYVAAGDLRA 1861
>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 = 27.6 bits (60), Expect = 3.4
Identities = 6/32 (18%), Positives = 13/32 (40%), Gaps = 15/32 (46%)
Query: 4 SSLSPIGHCP---PSLSLKCNFPFRPTRKASI 32
+SL + P+L++ KA++
Sbjct: 27 ASLKL--YADDSAPALAI----------KATM 46
Score = 26.5 bits (57), Expect = 6.8
Identities = 6/40 (15%), Positives = 13/40 (32%), Gaps = 12/40 (30%)
Query: 233 KLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAKIVGKNI 272
K + K+ L++ + APA + +
Sbjct: 19 KQALKKLQASLKLY--------ADDS----APALAIKATM 46
>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D
3j0j_D*
Length = 464
Score = 27.7 bits (62), Expect = 5.2
Identities = 11/41 (26%), Positives = 14/41 (34%), Gaps = 4/41 (9%)
Query: 75 PDGTVVPVTVVGFREGNIVTQVKTEATDGYDAVQIGYRRVR 115
G V V+ E V QV E T G + + V
Sbjct: 38 GTGRVRGGQVIEVSEEYAVIQV-FEETTG---LDLATTSVS 74
>2kfw_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLYD; protein,
cobalt, copper, cytoplasm, metal- binding, nickel,
rotamase, zinc; NMR {Escherichia coli}
Length = 196
Score = 27.0 bits (60), Expect = 5.8
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 68 GMMSYFEPDGTVVPVTVVGFREGNIV 93
GM E D VPV + + ++V
Sbjct: 93 GMRFLAETDQGPVPVEITAVEDDHVV 118
>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone,
rotamase; NMR {Escherichia coli}
Length = 171
Score = 26.9 bits (60), Expect = 5.9
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 68 GMMSYFEPDGTVVPVTVVGFREGNIV 93
GM E D VPV + + ++V
Sbjct: 93 GMRFLAETDQGPVPVEITAVEDDHVV 118
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S*
1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R*
3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V
1voy_V 1vp0_V
Length = 115
Score = 26.0 bits (58), Expect = 7.6
Identities = 13/47 (27%), Positives = 19/47 (40%), Gaps = 4/47 (8%)
Query: 220 MPGRMGGTTRKIRKLKIVKIDNDLRVVMIKGAVPGKPGNLLRVAPAK 266
MP G+ KL K D V+++ G G+ G +L P
Sbjct: 1 MPRPSAGSH-HNDKLHFKKGDT---VIVLSGKHKGQTGKVLLALPRD 43
>4aqn_A Pesticin; toxin, bacteriocin, colicin, three domains, muramidase;
1.98A {Yersinia pestis} PDB: 4epf_A 4arm_B 4arl_A 4arm_A
4arq_B 4arp_A 4arq_A
Length = 357
Score = 26.7 bits (58), Expect = 8.6
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 140 EFRLQSIDGFEAGQKLAFEEIFNEGDLVDVSGTTIGKGF 178
+ + S +GFE + D + +G T G G
Sbjct: 168 DHDIFSSNGFEGFNPTSHFPSNPSSDYFNSTGVTFGSGV 206
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
0.319 0.138 0.404
Gapped
Lambda K H
0.267 0.0731 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,281,441
Number of extensions: 267722
Number of successful extensions: 495
Number of sequences better than 10.0: 1
Number of HSP's gapped: 468
Number of HSP's successfully gapped: 31
Length of query: 275
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 183
Effective length of database: 4,133,061
Effective search space: 756350163
Effective search space used: 756350163
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 (21.7 bits)
S2: 56 (25.3 bits)