RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17953
(234 letters)
>3u5c_G RP9, S10, YS4, 40S ribosomal protein S6-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3j16_C 3u5g_G
Length = 236
Score = 156 bits (396), Expect = 9e-48
Identities = 106/170 (62%), Positives = 128/170 (75%), Gaps = 8/170 (4%)
Query: 15 RVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPR 74
R++LLL+K SCYRPRR GERKRKSVRG IV +L+VLALV+V+KGEQE+ GLTDTT+P+
Sbjct: 72 RIKLLLTKNVSCYRPRRDGERKRKSVRGAIVGPDLAVLALVIVKKGEQELEGLTDTTVPK 131
Query: 75 RLGPKRASKIRKLFNLSKEDDVRQYVIKRTLPPKPAKEGKKKVRKLYKAPKIQRLITPVT 134
RLGPKRA+ IRK F LSKEDDVR +VI+R +G+K KAPKIQRL+TP
Sbjct: 132 RLGPKRANNIRKFFGLSKEDDVRDFVIRR-----EVTKGEKTY---TKAPKIQRLVTPQR 183
Query: 135 LQRKRHLLALKKRRCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSS 184
LQRKRH ALK R ++E AAEYA+LLA R+ E+K K + RKRR SS
Sbjct: 184 LQRKRHQRALKVRNAQAQREAAAEYAQLLAKRLSERKAEKAEIRKRRASS 233
>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_Y
Length = 293
Score = 142 bits (359), Expect = 1e-41
Identities = 92/220 (41%), Positives = 118/220 (53%), Gaps = 11/220 (5%)
Query: 11 PKDRRVRLLLSKGHSCYRPRRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDT 70
RVRLLLS+GHSC+ RR+G RKRKSVRGCIV ++ VLAL +V+KG EI GLT
Sbjct: 68 MVRGRVRLLLSEGHSCFTSRRSGFRKRKSVRGCIVGPDMRVLALQIVKKGVAEIDGLTTV 127
Query: 71 TIPRRLGPKRASKIRKLFNLSKEDD---VRQYVIKRTLPPKPAKEGKKKVRKLYKAPKIQ 127
T+PR+LGPKRA+ I+KLF L KEDD +++ VI+RT K+ K PKIQ
Sbjct: 128 TLPRKLGPKRANNIKKLFGLKKEDDPILIKKSVIRRTFKTAKGKDR-------TKCPKIQ 180
Query: 128 RLITPVTLQRKRHLLALKKRRCLKRKEQAAEYAKLLAIRIKEKK-KAKEDERKRRRSSSL 186
RLITP + RK+ A K +R +K EY K L+ K++ KA +
Sbjct: 181 RLITPERILRKKVYKAEKTQRYVKTNAAKEEYEKFLSEWKKQRAAKAHAASAPVVEAPKK 240
Query: 187 RLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAA 226
+ +P A K PAA A A A
Sbjct: 241 VEAPKKVDPKAAKTTPAATKATPAATKVAPKTQAAKTTTP 280
>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 = 41.4 bits (96), Expect = 2e-04
Identities = 26/159 (16%), Positives = 56/159 (35%), Gaps = 33/159 (20%)
Query: 46 DSNLSVLALVVVRKGEQEIPGLTDTTIPRRL---------GPKRASKIRKLFNLSKEDDV 96
D S+L + + Q++P TT PRRL G + + N K +
Sbjct: 301 DEVKSLLLKYLDCR-PQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV-NCDKLTTI 358
Query: 97 RQYVIKRTLPPKPAKEGKKKVRKLYKAPKIQR---LITPVTLQR---------KRHLLA- 143
+ + L P + RK++ + I + L ++
Sbjct: 359 IESSLN-VLEPA-------EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 144 LKKRRCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRR 182
L K ++++ + + + + +I ++ K K + + R
Sbjct: 411 LHKYSLVEKQPKESTIS-IPSIYLELKVKLENEYALHRS 448
Score = 34.4 bits (78), Expect = 0.032
Identities = 16/94 (17%), Positives = 32/94 (34%), Gaps = 24/94 (25%)
Query: 78 PKRASKIRKLFN--LSKEDDVRQYVIKRTL-----------------PPKPAKEGKKKVR 118
S +LF LSK++++ Q ++ L P + ++
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
Query: 119 KLYKAPKIQRLITPVTLQRKRHLLALKKRRCLKR 152
+LY ++ + R + L L R+ L
Sbjct: 118 RLYNDN---QVFAKYNVSRLQPYLKL--RQALLE 146
Score = 34.1 bits (77), Expect = 0.041
Identities = 33/227 (14%), Positives = 67/227 (29%), Gaps = 50/227 (22%)
Query: 13 DRRVRL-----LLSKGHSCYRPR-----RTGERKRKSVRGCIVD----SNLSVLALVVVR 58
++R RL + +K + R + R + + + ++D S + +AL V
Sbjct: 114 EQRDRLYNDNQVFAKYNVS-RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL 172
Query: 59 --KGEQEIPG------LTDTTIPRRLGPKRASKIRKLFNLSK--EDDVRQYVIKRTLPPK 108
K + ++ L + P + + L L + + +
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETV-------LEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 109 PAKEGKKKVRKLYKAPKIQR--LITPVTL---QRKRHLLALKKRRC----LKRKEQAAEY 159
+ ++R+L K+ + L+ L Q + A C R +Q ++
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLV----LLNVQNAKAWNAFNL-SCKILLTTRFKQVTDF 280
Query: 160 ---AKLLAIRIKEKKKA-KEDERKRRRSSSLRLSTASSEPAAKKPAP 202
A I + DE K L P
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
>1qme_A Penicillin-binding protein 2X; peptidoglycan synthesis, resistance,
cell WALL, transmembrane; 2.4A {Streptococcus
pneumoniae} SCOP: d.11.1.1 d.11.1.1 d.175.1.1 e.3.1.1
PDB: 1qmf_A* 1pyy_A* 1rp5_A 1pmd_A 1k25_A 2zc3_B*
2z2l_B* 2z2m_B* 2zc4_B* 2zc3_A* 2z2l_A* 2z2m_A* 2zc4_A*
2zc3_C* 2z2l_C* 2z2m_C* 2zc4_C*
Length = 702
Score = 35.5 bits (82), Expect = 0.014
Identities = 14/109 (12%), Positives = 29/109 (26%), Gaps = 18/109 (16%)
Query: 30 RRTGERKRKSVRGCIVDSNLSVLA-------LVVVRKGEQEIPGLTDTTIPRRLGPKRAS 82
R + RG I D N +A + V + + + K A
Sbjct: 17 VHQTTRTVPAKRGTIYDRNGVPIAEDATSYNVYAVIDENYKSATGKILYVEKTQFNKVAE 76
Query: 83 KIRKLFNLSKED--------DVRQYVI---KRTLPPKPAKEGKKKVRKL 120
K ++ + +++Q + KK++
Sbjct: 77 VFHKYLDMEESYVREQLSQPNLKQVSFGAKGNGITYANMMSIKKELEAA 125
>1pzs_A Superoxide dismutase [CU-ZN]; Cu-protein, beta core, antioxidant,
metal binding, greek KEY barrel, oxidoreductase; 1.63A
{Mycobacterium tuberculosis} SCOP: b.1.8.1
Length = 208
Score = 33.7 bits (77), Expect = 0.032
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 191 ASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAP 227
+S + A+ P + +PAP+ + + + A
Sbjct: 2 SSPQHASTVPGTTPSIWTGSPAPSGLSGHDEESPGAQ 38
>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 = 0.032
Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 22/49 (44%)
Query: 169 EKKKAKEDERKRRRSSSLRLSTASSEPAAKKPAPAAPVTKAAPAPAAQA 217
EK+ K+ + +SL+L A +APA A +A
Sbjct: 18 EKQALKKLQ------ASLKLY--------------AD--DSAPALAIKA 44
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.30
Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 145 KKRRCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSSSLRLSTASSEPAAKK 199
+KR L+ + A++ + +EK K +E +R+S + + ++ A K
Sbjct: 95 RKR--LQELDAASKVME---QEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144
>3pbt_A Penicillin-binding protein 3; PBP3, hydrolase-antibiotic complex;
HET: UE1; 1.64A {Pseudomonas aeruginosa} PDB: 3pbn_A*
3pbo_A* 3pbr_A* 3pbs_A* 3pbq_A* 3oc2_A 3ocl_A* 3ocn_A*
Length = 538
Score = 30.7 bits (70), Expect = 0.43
Identities = 19/102 (18%), Positives = 31/102 (30%), Gaps = 23/102 (22%)
Query: 30 RRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPRRLG--PKRASKIRKL 87
R + RG I D N LA P T P+ L +R ++
Sbjct: 10 RSVRHIAIPAHRGLITDRNGEPLA--------VSTPVTTLWANPKELMTAKERWPQLAAA 61
Query: 88 FNLSKEDDV--------RQYV-IKRTLPPKPAKEGKKKVRKL 120
+ R+++ + R L P+ + V L
Sbjct: 62 LGQDTKLFADRIEQNAEREFIYLVRGLTPEQG----EGVIAL 99
>2uv8_A Fatty acid synthase subunit alpha (FAS2); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_A* 3hmj_A*
Length = 1887
Score = 30.7 bits (69), Expect = 0.49
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 189 STASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPT 231
+ PAA PAPAA A A A A+ A PV +
Sbjct: 107 EAPAPTPAASAPAPAAAAPAPVAAAAPAAAAAE-IADEPVKAS 148
>2uv9_A Fatty acid synthase alpha subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; 3.1A
{Thermomyces lanuginosus} PDB: 2uvb_A*
Length = 1878
Score = 30.7 bits (69), Expect = 0.52
Identities = 12/43 (27%), Positives = 16/43 (37%)
Query: 189 STASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPT 231
++++ A PA A A A A A APV T
Sbjct: 106 ASSADAAPAAAPAAPAAPAAAPAPAPASAGPAAPVQDAPVTAT 148
>3equ_A PBP-2, penicillin-binding protein 2; class B transpeptidase, cell
DIV cell inner membrane, cell membrane, cell shape; HET:
SEP; 2.40A {Neisseria gonorrhoeae} PDB: 3eqv_A*
Length = 542
Score = 30.3 bits (69), Expect = 0.60
Identities = 20/103 (19%), Positives = 41/103 (39%), Gaps = 24/103 (23%)
Query: 30 RRTGERKRKSVRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPRRL----GPKRASKIR 85
R + + RG + D N +VLA P + +P+ + + ++
Sbjct: 25 RIVRTQALPATRGTVSDRNGAVLA--------LSAPTESLFAVPKDMKEMPSAAQLERLS 76
Query: 86 KLFNLSKED-------DVRQYV-IKRTLPPKPAKEGKKKVRKL 120
+L ++ + + ++ IKR L PK A ++V+ L
Sbjct: 77 ELVDVPVDVLRNKLEQKGKSFIWIKRQLDPKVA----EEVKAL 115
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 29.9 bits (67), Expect = 0.68
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 202 PAAPVTKAAPAPAAQAKGAKGAAAAPVGPT 231
PAAP + P AA + A G A P P
Sbjct: 2 PAAPTSPGTPGVAAATQAANGGPATPAPPA 31
>3iot_A Maltose-binding protein, huntingtin fusion protein; HTT-EX1, HD,
sugar transport, transport, apoptosis, cytoplasm,
disease mutation; 3.50A {Escherichia coli k-12} PDB:
3io6_A 3io4_A 3ior_A 3iou_A 3iov_A 3iow_A
Length = 449
Score = 29.8 bits (67), Expect = 0.88
Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 1/80 (1%)
Query: 154 EQAAEYAKLLAIRIKEKKKAKEDERKRRRSSSLRLSTASSEPAAKKPAPAAPVTKAAPAP 213
A A + +++ KA E + ++ + + P P P P P
Sbjct: 362 AAAQTNAAAM-ATLEKLMKAFESLKSFQQQQQQQQQQQQQQQQQPPPPPPPPPPPQLPQP 420
Query: 214 AAQAKGAKGAAAAPVGPTNL 233
QA+ + + L
Sbjct: 421 PPQAQPLLPQQSYQITAGKL 440
>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170,
putative RNA methylase, PSI,MCSG, structu genomics;
1.50A {Listeria monocytogenes str}
Length = 393
Score = 29.2 bits (66), Expect = 1.2
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 69 DTTIPRRLGPKRASKIRKLFNLSKEDDVRQYVIKRTLPPKPAKE 112
G K+A+K RKL+N D+ QY R P+P KE
Sbjct: 352 YELFEEVYG-KKATKKRKLYNGYLRTDLYQYWGPR--KPRPKKE 392
>1vqq_A Saupbp2A, penicillin-binding protein MECA, low-affinity;
beta-lactam, D- transpeptidase, D-carboxypeptidase,
biosynthetic protein; 1.80A {Staphylococcus aureus}
SCOP: d.17.4.5 d.175.1.1 e.3.1.1 PDB: 1mwu_A* 1mwr_A
1mws_A* 1mwt_A*
Length = 646
Score = 28.8 bits (65), Expect = 1.6
Identities = 23/100 (23%), Positives = 33/100 (33%), Gaps = 10/100 (10%)
Query: 40 VRGCIVDSNLSVLALVVVRKGEQEIPGLTDTTIPRRLGPKRASKIRKLFNLSKEDDVRQY 99
RG I+D N LA +P+ + K I K ++S++ +Q
Sbjct: 128 ERGKILDRNNVELA--------NTGTAYEIGIVPKNVSKKDYKAIAKELSISEDYIKQQM 179
Query: 100 --VIKRTLPPKPAKEGKKKVRKLYKAPKIQRLITPVTLQR 137
+ P K KK L K L T T R
Sbjct: 180 DQNWVQDDTFVPLKTVKKMDEYLSDFAKKFHLTTNETESR 219
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 28.5 bits (63), Expect = 1.7
Identities = 10/84 (11%), Positives = 23/84 (27%)
Query: 148 RCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSSSLRLSTASSEPAAKKPAPAAPVT 207
R + E + A K+ + E ++ + P+ P+
Sbjct: 201 LYFYRDPEEIEKEEQAAAEKAVTKEEFQGEWTAPAPEFTAAQPEVADWSEGVQVPSVPIQ 260
Query: 208 KAAPAPAAQAKGAKGAAAAPVGPT 231
+ + + +AAP
Sbjct: 261 QFPTEDWSAQPSTEDWSAAPTAQA 284
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 28.7 bits (63), Expect = 1.7
Identities = 21/117 (17%), Positives = 34/117 (29%), Gaps = 2/117 (1%)
Query: 106 PPKPAKEGKKKVRKLYKAPKIQRLITPVTLQRKRHLLALKKRRCLKRKEQAAEYAKLLAI 165
P K K L + +L R+ +L K L+ + AA
Sbjct: 305 PRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEE 364
Query: 166 RIKEKKKAKEDERKRRRSS--SLRLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGA 220
+ KK + + K+ + A KKPA + P + A
Sbjct: 365 KGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEKKPTTEEKKPAA 421
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 27.8 bits (61), Expect = 3.0
Identities = 13/53 (24%), Positives = 16/53 (30%)
Query: 182 RSSSLRLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPTNLP 234
++S L+ PAP P AA P G GPT
Sbjct: 30 SAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVTGDSVLQRILRGPTGPG 82
>3blc_A Inner membrane protein OXAA; YIDC, membrane assembly facilitator,
chaperone, periplasmic inner membrane, transmembrane;
2.50A {Escherichia coli K12}
Length = 330
Score = 27.9 bits (62), Expect = 3.2
Identities = 10/34 (29%), Positives = 13/34 (38%)
Query: 198 KKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPT 231
K P P A T AA + +G A+ G
Sbjct: 3 KNPQPQAQQTTQTTTTAAGSAADQGVPASGQGKL 36
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 27.4 bits (60), Expect = 3.6
Identities = 12/41 (29%), Positives = 13/41 (31%), Gaps = 1/41 (2%)
Query: 191 ASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPT 231
+ PAPAA A APA A PT
Sbjct: 261 QAGADWTAAPAPAAGGWDTAAAPAPGW-EQGSAPVPAAAPT 300
Score = 27.4 bits (60), Expect = 4.6
Identities = 15/85 (17%), Positives = 24/85 (28%), Gaps = 3/85 (3%)
Query: 151 KRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSSSLRLSTASSEPAAKKPAPAAPVTKA- 209
+++E+ A + E D + A+ A AAP A
Sbjct: 216 EQEEEEAALVAPDYGAVAEYAAPAADTWGGEWGTDAAAQPAAIPAQAGADWTAAPAPAAG 275
Query: 210 --APAPAAQAKGAKGAAAAPVGPTN 232
A A +G+A P
Sbjct: 276 GWDTAAAPAPGWEQGSAPVPAAAPT 300
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 27.4 bits (61), Expect = 4.8
Identities = 19/101 (18%), Positives = 26/101 (25%), Gaps = 10/101 (9%)
Query: 136 QRKRH--------LLAL--KKRRCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSSS 185
Q KR L+ + RRC R + + L + I EK K KE
Sbjct: 23 QEKRFKDPGLVDQLVKADSEWRRCRFRADNLNKLKNLCSKTIGEKMKKKEPVGDDESVPE 82
Query: 186 LRLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAA 226
LS A + + K
Sbjct: 83 NVLSFDDLTADALANLKVSQIKKVRLLIDEAILKCDAERIK 123
>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens}
SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A
Length = 336
Score = 27.2 bits (60), Expect = 4.9
Identities = 10/66 (15%), Positives = 21/66 (31%)
Query: 138 KRHLLALKKRRCLKRKEQAAEYAKLLAIRIKEKKKAKEDERKRRRSSSLRLSTASSEPAA 197
K L ++R + + YA + +E+ KAK + + + A
Sbjct: 267 KTQLAVCQQRIRRQLAREKKLYANMFERLAEEENKAKAEASSGDHPTDTEMKEEQKSNTA 326
Query: 198 KKPAPA 203
+
Sbjct: 327 GSQSQV 332
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain,
transcription, RNA binding protein; 2.27A {Pseudomonas
aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5
c.55.3.13 PDB: 3bzk_A 2oce_A
Length = 785
Score = 27.2 bits (61), Expect = 5.5
Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 3/54 (5%)
Query: 176 DERKRRRSSSLRLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVG 229
D + R S+R+ S P K + P + +G +A P
Sbjct: 713 DIPRNRVGLSMRM---SDTPGEKVEGQRGGRPTGSGQPRQERGAPRGQSAPPAN 763
>1eys_C Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: a.138.1.2
Length = 382
Score = 26.4 bits (57), Expect = 8.9
Identities = 13/38 (34%), Positives = 16/38 (42%)
Query: 191 ASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPV 228
++ A APA V A PAA GA AA +
Sbjct: 329 PAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSVE 366
Score = 26.4 bits (57), Expect = 9.4
Identities = 12/53 (22%), Positives = 18/53 (33%)
Query: 182 RSSSLRLSTASSEPAAKKPAPAAPVTKAAPAPAAQAKGAKGAAAAPVGPTNLP 234
+++ A + APAA A APA + A+ AA
Sbjct: 309 YKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEA 361
>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}
Length = 385
Score = 26.5 bits (59), Expect = 9.0
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 69 DTTIPRRLGPKRASKIRKLFNLSKEDDVRQYVIKRTLPPKPAK 111
G ++A K RKL+N + + QY + PP+ K
Sbjct: 346 YEDFEYEFG-QKADKKRKLYNGMLKTNFFQYPGPK--PPRNNK 385
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 0.131 0.375
Gapped
Lambda K H
0.267 0.0546 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,400,373
Number of extensions: 200000
Number of successful extensions: 729
Number of sequences better than 10.0: 1
Number of HSP's gapped: 685
Number of HSP's successfully gapped: 90
Length of query: 234
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,160,982
Effective search space: 595020426
Effective search space used: 595020426
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: 56 (25.8 bits)