254780779
30S ribosomal protein S2
GeneID in NCBI database: | 8209785 | Locus tag: | CLIBASIA_03350 |
Protein GI in NCBI database: | 254780779 | Protein Accession: | YP_003065192.1 |
Gene range: | +(483518, 484354) | Protein Length: | 278aa |
Gene description: | 30S ribosomal protein S2 | ||
COG prediction: | [J] Ribosomal protein S2 | ||
KEGG prediction: | rpsB; 30S ribosomal protein S2; K02967 small subunit ribosomal protein S2 | ||
SEED prediction: | SSU ribosomal protein S2p (SAe) | ||
Pathway involved in KEGG: | Ribosome [PATH:las03010] | ||
Subsystem involved in SEED: | Ribosome SSU bacterial | ||
sequence | sequence profile |
Prediction of Local Sequence Properties
Source | Summary | Result |
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Close Homologs Detected by BLAST or PSI-BLAST
Homolog within the Genome Detected by BLAST
Original result of BLAST against C. L. asiaticus genome
No hits with e-value below 0.05
Close Homologs Detected BLAST or PSI-BLAST in the First 2 Iterations
Original result of PSI-BLAST first 2 iterations
Identity | Alignment graph | Length | Definition | Round | E-value |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | |||
315121996 | 289 | 30S ribosomal protein S2 [Candidatus Liberibacter solan | 1 | 1e-128 | |
86357534 | 255 | 30S ribosomal protein S2 [Rhizobium etli CFN 42] Length | 1 | 1e-102 | |
116251977 | 255 | 30S ribosomal protein S2 [Rhizobium leguminosarum bv. v | 1 | 1e-101 | |
190891607 | 255 | 30S ribosomal protein S2 [Rhizobium etli CIAT 652] Leng | 1 | 1e-101 | |
327189222 | 255 | 30S ribosomal protein S2 [Rhizobium etli CNPAF512] Leng | 1 | 1e-101 | |
222085857 | 256 | ribosomal protein S2 [Agrobacterium radiobacter K84] Le | 1 | 1e-101 | |
15965248 | 255 | 30S ribosomal protein S2 [Sinorhizobium meliloti 1021] | 1 | 1e-100 | |
227821897 | 255 | 30S ribosomal protein S2 [Sinorhizobium fredii NGR234] | 1 | 1e-100 | |
150396350 | 255 | 30S ribosomal protein S2 [Sinorhizobium medicae WSM419] | 1 | 1e-100 | |
110633734 | 267 | 30S ribosomal protein S2 [Mesorhizobium sp. BNC1] Lengt | 1 | 1e-100 |
>gi|315121996|ref|YP_004062485.1| 30S ribosomal protein S2 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 289 | Back alignment and organism information |
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Score = 462 bits (1189), Expect = e-128, Method: Compositional matrix adjust. Identities = 220/264 (83%), Positives = 239/264 (90%), Gaps = 6/264 (2%) Query: 1 MALPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVIS 60 MA+P FT++QLLESGVQFGHR FLWNPKM+ YIFCER+NTHIIDLSQTVPML KALQV+S Sbjct: 1 MAIPNFTMQQLLESGVQFGHRKFLWNPKMKPYIFCERSNTHIIDLSQTVPMLHKALQVVS 60 Query: 61 DTVARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLE 120 DTVARGGRILFVATK QAS+ VMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDL+ Sbjct: 61 DTVARGGRILFVATKPQASNVVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLD 120 Query: 121 ELLNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRL 180 ELL+KENQ FTKKERLNIER+RDKLKRALDGIRDMGGLPDLMF++DTNREKLAI+EARRL Sbjct: 121 ELLSKENQDFTKKERLNIERRRDKLKRALDGIRDMGGLPDLMFIIDTNREKLAIEEARRL 180 Query: 181 RIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTKSA 240 RIPIVAVVD+N NPDL+DY+IPGNDDS+RSIALFCDLVASAAIDGIARQHSYMG DTK Sbjct: 181 RIPIVAVVDSNCNPDLIDYIIPGNDDSARSIALFCDLVASAAIDGIARQHSYMGGDTKPL 240 Query: 241 GETVVHSKEGMQLEEDSQSSESSV 264 V LEEDS++ E V Sbjct: 241 DNDV------KSLEEDSKNLEGEV 258 |
Species: Candidatus Liberibacter solanacearum Genus: Candidatus Liberibacter Family: Rhizobiaceae Order: Rhizobiales Class: Alphaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
>gi|86357534|ref|YP_469426.1| 30S ribosomal protein S2 [Rhizobium etli CFN 42] Length = 255 | Back alignment and organism information |
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>gi|116251977|ref|YP_767815.1| 30S ribosomal protein S2 [Rhizobium leguminosarum bv. viciae 3841] Length = 255 | Back alignment and organism information |
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>gi|190891607|ref|YP_001978149.1| 30S ribosomal protein S2 [Rhizobium etli CIAT 652] Length = 255 | Back alignment and organism information |
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>gi|327189222|gb|EGE56401.1| 30S ribosomal protein S2 [Rhizobium etli CNPAF512] Length = 255 | Back alignment and organism information |
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>gi|222085857|ref|YP_002544388.1| ribosomal protein S2 [Agrobacterium radiobacter K84] Length = 256 | Back alignment and organism information |
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>gi|15965248|ref|NP_385601.1| 30S ribosomal protein S2 [Sinorhizobium meliloti 1021] Length = 255 | Back alignment and organism information |
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>gi|227821897|ref|YP_002825867.1| 30S ribosomal protein S2 [Sinorhizobium fredii NGR234] Length = 255 | Back alignment and organism information |
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>gi|150396350|ref|YP_001326817.1| 30S ribosomal protein S2 [Sinorhizobium medicae WSM419] Length = 255 | Back alignment and organism information |
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>gi|110633734|ref|YP_673942.1| 30S ribosomal protein S2 [Mesorhizobium sp. BNC1] Length = 267 | Back alignment and organism information |
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Conserved Domains in CDD Database
Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
Original result of RPS-BLASTagainst CDD database part II
Identity | Alignment graph | Length | Definition | E-value |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
PRK05299 | 258 | PRK05299, rpsB, 30S ribosomal protein S2; Provisional | 1e-109 | |
PRK12311 | 326 | PRK12311, rpsB, 30S ribosomal protein S2/unknown domain | 1e-107 | |
TIGR01011 | 225 | TIGR01011, rpsB_bact, ribosomal protein S2, bacterial t | 8e-88 | |
pfam00318 | 205 | pfam00318, Ribosomal_S2, Ribosomal protein S2 | 4e-87 | |
KOG0832 | 251 | KOG0832, KOG0832, KOG0832, Mitochondrial/chloroplast ri | 4e-43 | |
COG0052 | 252 | COG0052, RpsB, Ribosomal protein S2 [Translation, ribos | 1e-87 | |
cd01425 | 193 | cd01425, RPS2, Ribosomal protein S2 (RPS2), involved in | 9e-78 | |
CHL00067 | 230 | CHL00067, rps2, ribosomal protein S2 | 1e-69 | |
PTZ00254 | 249 | PTZ00254, PTZ00254, 40S ribosomal protein SA; Provision | 9e-11 | |
TIGR01012 | 196 | TIGR01012, Sa_S2_E_A, ribosomal protein Sa(cytosolic)/S | 5e-09 | |
PRK04020 | 204 | PRK04020, rps2P, 30S ribosomal protein S2; Provisional | 2e-09 |
>gnl|CDD|180001 PRK05299, rpsB, 30S ribosomal protein S2; Provisional | Back alignment and domain information |
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>gnl|CDD|183428 PRK12311, rpsB, 30S ribosomal protein S2/unknown domain fusion protein; Provisional | Back alignment and domain information |
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>gnl|CDD|130084 TIGR01011, rpsB_bact, ribosomal protein S2, bacterial type | Back alignment and domain information |
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>gnl|CDD|144054 pfam00318, Ribosomal_S2, Ribosomal protein S2 | Back alignment and domain information |
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>gnl|CDD|36050 KOG0832, KOG0832, KOG0832, Mitochondrial/chloroplast ribosomal protein S2 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>gnl|CDD|30401 COG0052, RpsB, Ribosomal protein S2 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>gnl|CDD|100106 cd01425, RPS2, Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome | Back alignment and domain information |
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>gnl|CDD|177007 CHL00067, rps2, ribosomal protein S2 | Back alignment and domain information |
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>gnl|CDD|185527 PTZ00254, PTZ00254, 40S ribosomal protein SA; Provisional | Back alignment and domain information |
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>gnl|CDD|130085 TIGR01012, Sa_S2_E_A, ribosomal protein Sa(cytosolic)/S2(archaeal) | Back alignment and domain information |
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>gnl|CDD|179713 PRK04020, rps2P, 30S ribosomal protein S2; Provisional | Back alignment and domain information |
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Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity | Alignment graph | Length | Definition | Probability |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
TIGR01011 | 227 | rpsB_bact ribosomal protein S2; InterPro: IPR005706 Rib | 100.0 | |
PRK12311 | 332 | rpsB 30S ribosomal protein S2; Provisional | 100.0 | |
COG0052 | 252 | RpsB Ribosomal protein S2 [Translation, ribosomal struc | 100.0 | |
PRK05299 | 255 | rpsB 30S ribosomal protein S2; Provisional | 100.0 | |
CHL00067 | 227 | rps2 ribosomal protein S2 | 100.0 | |
pfam00318 | 205 | Ribosomal_S2 Ribosomal protein S2. | 100.0 | |
cd01425 | 193 | RPS2 Ribosomal protein S2 (RPS2), involved in formation | 100.0 | |
PRK04020 | 204 | rps2P 30S ribosomal protein S2; Provisional | 100.0 | |
PTZ00254 | 242 | 40S ribosomal protein SA; Provisional | 100.0 | |
KOG0832 | 251 | consensus | 100.0 | |
TIGR01012 | 197 | Sa_S2_E_A ribosomal protein S2; InterPro: IPR005707 Rib | 100.0 | |
KOG0830 | 254 | consensus | 99.94 | |
PRK00414 | 192 | gmhA phosphoheptose isomerase; Reviewed | 97.32 | |
PRK13938 | 196 | phosphoheptose isomerase; Provisional | 96.99 | |
PRK13936 | 197 | phosphoheptose isomerase; Provisional | 96.83 | |
PRK13937 | 192 | phosphoheptose isomerase; Provisional | 96.69 | |
cd05006 | 177 | SIS_GmhA Phosphoheptose isomerase is a member of the SI | 95.95 | |
PRK10886 | 196 | DnaA initiator-associating protein DiaA; Provisional | 95.12 | |
PRK13608 | 391 | diacylglycerol glucosyltransferase; Provisional | 93.84 | |
cd05007 | 257 | SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. | 92.01 | |
cd05013 | 139 | SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar | 93.03 | |
cd03805 | 392 | GT1_ALG2_like This family is most closely related to th | 91.93 | |
cd06305 | 273 | PBP1_methylthioribose_binding_like Methylthioribose-bin | 90.98 | |
cd06317 | 275 | PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding | 90.98 | |
PRK00726 | 359 | murG N-acetylglucosaminyl transferase; Provisional | 92.72 | |
cd03785 | 350 | GT1_MurG MurG is an N-acetylglucosaminyltransferase, th | 91.31 | |
TIGR00113 | 364 | queA S-adenosylmethionine:tRNA ribosyltransferase-isome | 92.09 | |
pfam04007 | 335 | DUF354 Protein of unknown function (DUF354). Members of | 91.77 |
>TIGR01011 rpsB_bact ribosomal protein S2; InterPro: IPR005706 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
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>PRK12311 rpsB 30S ribosomal protein S2; Provisional | Back alignment and domain information |
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>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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>PRK05299 rpsB 30S ribosomal protein S2; Provisional | Back alignment and domain information |
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>CHL00067 rps2 ribosomal protein S2 | Back alignment and domain information |
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>pfam00318 Ribosomal_S2 Ribosomal protein S2 | Back alignment and domain information |
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>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome | Back alignment and domain information |
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>PRK04020 rps2P 30S ribosomal protein S2; Provisional | Back alignment and domain information |
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>PTZ00254 40S ribosomal protein SA; Provisional | Back alignment and domain information |
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>KOG0832 consensus | Back alignment and domain information |
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>TIGR01012 Sa_S2_E_A ribosomal protein S2; InterPro: IPR005707 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms | Back alignment and domain information |
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>KOG0830 consensus | Back alignment and domain information |
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>PRK00414 gmhA phosphoheptose isomerase; Reviewed | Back alignment and domain information |
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>PRK13938 phosphoheptose isomerase; Provisional | Back alignment and domain information |
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>PRK13936 phosphoheptose isomerase; Provisional | Back alignment and domain information |
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>PRK13937 phosphoheptose isomerase; Provisional | Back alignment and domain information |
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>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily | Back alignment and domain information |
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>PRK10886 DnaA initiator-associating protein DiaA; Provisional | Back alignment and domain information |
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>PRK13608 diacylglycerol glucosyltransferase; Provisional | Back alignment and domain information |
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>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase | Back alignment and domain information |
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>cd05013 SIS_RpiR RpiR-like protein | Back alignment and domain information |
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>cd03805 GT1_ALG2_like This family is most closely related to the GT1 family of glycosyltransferases | Back alignment and domain information |
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>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily | Back alignment and domain information |
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>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems | Back alignment and domain information |
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>PRK00726 murG N-acetylglucosaminyl transferase; Provisional | Back alignment and domain information |
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>cd03785 GT1_MurG MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis | Back alignment and domain information |
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>TIGR00113 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase; InterPro: IPR003699 Queuosine is a hypermodified nucleoside that usually occurs in the first position of the anticodon of tRNAs specifying the amino acids asparagine, aspartate, histidine, and tyrosine | Back alignment and domain information |
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>pfam04007 DUF354 Protein of unknown function (DUF354) | Back alignment and domain information |
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Homologous Structures in PDB Database
Detected by PSI-BLAST, RPS-BLAST and HHsearch
Homologous Structures Detected by PSI-BLAST against Nonredundant Database
Identity | Alignment graph | Length | Definition | E-value |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
1vs5_B | 241 | Crystal Structure Of The Bacterial Ribosome From Es | 2e-62 | |
1p87_B | 240 | Real Space Refined Coordinates Of The 30s Subunit F | 1e-61 | |
2gy9_B | 236 | Structure Of The 30s Subunit Of A Pre-Translocation | 2e-60 | |
3fih_B | 218 | Ternary Complex-Bound E.Coli 70s Ribosome. This Ent | 4e-58 | |
1i94_B | 255 | Crystal Structures Of The Small Ribosomal Subunit W | 2e-56 | |
1fjg_B | 256 | Structure Of The Thermus Thermophilus 30s Ribosomal | 2e-56 | |
2e5l_B | 227 | A Snapshot Of The 30s Ribosomal Subunit Capturing M | 4e-55 | |
1pns_B | 234 | Crystal Structure Of A Streptomycin Dependent Ribos | 4e-54 | |
3fic_B | 235 | T. Thermophilus 70s Ribosome In Complex With Mrna, | 5e-54 | |
1x18_E | 231 | Contact Sites Of Era Gtpase On The Thermus Thermoph | 1e-52 | |
3bbn_B | 231 | Homology Model For The Spinach Chloroplast 30s Subu | 2e-52 | |
3iz6_A | 305 | Localization Of The Small Subunit Ribosomal Protein | 5e-27 | |
3bch_A | 253 | Crystal Structure Of The Human Laminin Receptor Pre | 8e-27 | |
1vi6_A | 208 | Crystal Structure Of Ribosomal Protein S2p Length = | 8e-20 | |
3izb_A | 252 | Localization Of The Small Subunit Ribosomal Protein | 2e-19 | |
2xzm_B | 241 | Crystal Structure Of The Eukaryotic 40s Ribosomal S | 2e-19 | |
3jyv_B | 193 | Structure Of The 40s Rrna And Proteins And PE TRNA | 4e-19 | |
1s1h_B | 185 | Structure Of The Ribosomal 80s-Eef2-Sordarin Comple | 4e-19 | |
1vi5_A | 208 | Crystal Structure Of Ribosomal Protein S2p Length = | 3e-18 | |
2zkq_b | 295 | Structure Of A Mammalian Ribosomal 40s Subunit With | 3e-28 |
gi|116666568|pdb|1VS5|B Chain B, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 241 | Back alignment and structure |
Score = 243 bits (619), Expect = 2e-62, Method: Composition-based stats. Identities = 112/241 (46%), Positives = 163/241 (67%), Gaps = 1/241 (0%) Query: 3 LPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDT 62 + ++R +L++GV FGH+ WNPKM+ +IF RN HII+L +TVPM +AL ++ Sbjct: 1 MATVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKI 60 Query: 63 VARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLE-E 121 +R G+ILFV TK AS+ V +AA Q+ VN +WLGGM+TNWKTV QSI++L+DLE + Sbjct: 61 ASRKGKILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQ 120 Query: 122 LLNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLR 181 + TKKE L R+ +KL+ +L GI+DMGGLPD +FV+D + E +AI+EA L Sbjct: 121 SQDGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLG 180 Query: 182 IPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTKSAG 241 IP+ A+VDTNS+PD VD+VIPGNDD+ R++ L+ VA+ +G ++ + ++ Sbjct: 181 IPVFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRSQDLASQAEESFVEA 240 Query: 242 E 242 E Sbjct: 241 E 241 |
>gi|33357956|pdb|1P87|B Chain B, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Initiation-Like State Of E. Coli 70s Ribosome Length = 240 | Back alignment and structure |
gi|116667411|pdb|2GY9|B Chain B, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 236 | Back alignment and structure |
>gi|224510723|pdb|3FIH|B Chain B, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 218 | Back alignment and structure |
>gi|14278531|pdb|1I94|B Chain B, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 255 | Back alignment and structure |
gi|10835586|pdb|1FJG|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 256 | Back alignment and structure |
>gi|149241276|pdb|2E5L|B Chain B, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via The Shine- Dalgarno Interaction Length = 227 | Back alignment and structure |
>gi|34811530|pdb|1PNS|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. Length = 234 | Back alignment and structure |
>gi|224510685|pdb|3FIC|B Chain B, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef-Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands Length = 235 | Back alignment and structure |
>gi|73536330|pdb|1X18|E Chain E, Contact Sites Of Era Gtpase On The Thermus Thermophilus 30s Subunit Length = 231 | Back alignment and structure |
>gi|188036203|pdb|3BBN|B Chain B, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 231 | Back alignment and structure |
gi|313103629|pdb|3IZ6|A Chain A, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 305 | Back alignment and structure |
>gi|161761214|pdb|3BCH|A Chain A, Crystal Structure Of The Human Laminin Receptor Precursor Length = 253 | Back alignment and structure |
>gi|40889982|pdb|1VI6|A Chain A, Crystal Structure Of Ribosomal Protein S2p Length = 208 | Back alignment and structure |
gi|313103664|pdb|3IZB|A Chain A, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 252 | Back alignment and structure |
gi|319443357|pdb|2XZM|B Chain B, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 241 | Back alignment and structure |
>gi|281500808|pdb|3JYV|B Chain B, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 193 | Back alignment and structure |
>gi|49258822|pdb|1S1H|B Chain B, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i Length = 185 | Back alignment and structure |
>gi|40889978|pdb|1VI5|A Chain A, Crystal Structure Of Ribosomal Protein S2p Length = 208 | Back alignment and structure |
gi|187609256|pdb|2ZKQ|BB Chain b, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 295 | Back alignment and structure |
Homologous Structures in PDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
Identity | Alignment graph | Length | Definition | E-value |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
3ofo_B | 218 | 30S ribosomal protein S2; protein biosynthesis, ribosom | 5e-76 | |
3bbn_B | 231 | Ribosomal protein S2; small ribosomal subunit, spinach | 4e-64 | |
3i1m_B | 241 | 30S ribosomal protein S2; ribosome structure, protein-R | 6e-63 | |
2vqe_B | 256 | 30S ribosomal protein S2; tRNA-binding, rRNA-binding, m | 9e-54 | |
3bch_A | 253 | 40S ribosomal protein SA; laminin receptor, P40 ribosom | 2e-46 | |
3jyv_B | 193 | 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 | 1e-41 | |
1vi6_A | 208 | 30S ribosomal protein S2P; structural genomics, ribosom | 1e-38 | |
2zkq_b | 295 | 40S ribosomal protein SA; protein-RNA complex, 40S ribo | 8e-49 |
>3ofo_B 30S ribosomal protein S2; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_B* 2wwl_B 3ofp_B 3i1m_B 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 3kc4_B 3or9_B 3ora_B 2qal_B* 1p87_B 2aw7_B 2avy_B ... Length = 218 | Back alignment and structure |
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Score = 279 bits (715), Expect = 5e-76 Identities = 110/218 (50%), Positives = 153/218 (70%), Gaps = 1/218 (0%) Query: 11 LLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRIL 70 +L++GV FGH+ WNPKM+ +IF RN HII+L +TVPM +AL ++ +R G+IL Sbjct: 1 MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKIL 60 Query: 71 FVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELL-NKENQG 129 FV TK AS+ V +AA Q+ VN +WLGGM+TNWKTV QSI++L+DLE + Sbjct: 61 FVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDK 120 Query: 130 FTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVAVVD 189 TKKE L R+ +KL+ +L GI+DMGGLPD +FV+D + E +AI+EA L IP+ A+VD Sbjct: 121 LTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVD 180 Query: 190 TNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIA 227 TNS+PD VD+VIPGNDD+ R++ L+ VA+ +G + Sbjct: 181 TNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRS 218 |
>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 231 | Back alignment and structure |
---|
>3i1m_B 30S ribosomal protein S2; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 2qal_B* 1p87_B 2aw7_B 2avy_B 2i2u_B 2i2p_B* 2qan_B* 2qb9_B* 2qbb_B* 2qbd_B 2qbf_B ... Length = 241 | Back alignment and structure |
---|
>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E* 1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B 1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B* 1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ... Length = 256 | Back alignment and structure |
---|
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein, acetylation, cytoplasm, phosphorylation, polymorphism; 2.15A {Homo sapiens} Length = 253 | Back alignment and structure |
---|
>3jyv_B 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_B Length = 193 | Back alignment and structure |
---|
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A {Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A Length = 208 | Back alignment and structure |
---|
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 295 | Back alignment and structure |
---|
Homologous Structures in PDB70 Database Detected by HHsearch
Original result of HHsearch against PDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
2vqe_B | 256 | 30S ribosomal protein S2; tRNA-binding, rRNA-binding, m | 100.0 | |
3bbn_B | 231 | Ribosomal protein S2; small ribosomal subunit, spinach | 100.0 | |
3ofo_B | 218 | 30S ribosomal protein S2; protein biosynthesis, ribosom | 100.0 | |
3bch_A | 253 | 40S ribosomal protein SA; laminin receptor, P40 ribosom | 100.0 | |
2zkq_b | 295 | 40S ribosomal protein SA; protein-RNA complex, 40S ribo | 100.0 | |
1vi6_A | 208 | 30S ribosomal protein S2P; structural genomics, ribosom | 100.0 | |
3jyv_B | 193 | 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 | 100.0 | |
1tk9_A | 188 | Phosphoheptose isomerase 1; lipopolysaccharide biosynth | 97.65 | |
2i2w_A | 212 | Phosphoheptose isomerase; lipopolysaccharide biosynthes | 97.43 | |
2xbl_A | 198 | Phosphoheptose isomerase; capsule; HET: M7P PGE PG4; 1. | 96.71 | |
2yva_A | 196 | DNAA initiator-associating protein DIAA; intermolecular | 96.33 | |
1x92_A | 199 | APC5045, phosphoheptose isomerase; midwest centre for s | 95.9 | |
1nri_A | 306 | Hypothetical protein HI0754; structural genomics, PSI, | 93.23 | |
3dzc_A | 396 | UDP-N-acetylglucosamine 2-epimerase; structural genomic | 91.74 | |
3cs3_A | 277 | Sugar-binding transcriptional regulator, LACI family; s | 91.21 |
>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E* 1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B 1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B* 1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ... | Back alignment and structure |
---|
Probab=100.00 E-value=0 Score=599.81 Aligned_cols=228 Identities=46% Similarity=0.800 Sum_probs=221.2 Q ss_pred CC-CCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHH Q ss_conf 66-24589998608860754776578856210200188167538999999999999999861078816996078235799 Q gi|254780779|r 3 LP-QFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDC 81 (278) Q Consensus 3 m~-~~t~~~Ll~ag~H~Gh~~~~wnPkM~~yI~g~rngihIIdL~kT~~~L~~A~~~i~~i~~~gg~ILFVgTk~~~~~~ 81 (278) || ++|+++||+|||||||++++|||+|+|||||.|||+|||||++|+.+|++|+.|++.++.+||+|||||||+|++.+ T Consensus 1 m~~~~ti~~ll~ag~H~Gh~~~~wnp~m~~yIyg~r~gi~IIdL~kT~~~L~~A~~~i~~i~~~~g~iLfVgTk~~~~~~ 80 (256) T 2vqe_B 1 MPVEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTILFVGTKKQAQDI 80 (256) T ss_dssp -----CCCSTTCSSTTCCCBSSSCCGGGSTTEEEEETTEEEECHHHHHHHHHHHHHHHHHHHTTTCCEEEECCSSSSTTT T ss_pred CCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHH T ss_conf 99747799999719826667685798875612045088168869999999999999999885179869999575999999 Q ss_pred HHHHHHHCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 999986339831423345873234266655567789988763-0121267746788766556777643443322113595 Q gi|254780779|r 82 VMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELL-NKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPD 160 (278) Q Consensus 82 i~~~A~~~~~~yV~~RWlGG~LTN~~ti~~si~~l~~l~~~~-~~~~~~~tkKe~~~~~r~~~kl~k~lgGi~~m~~lP~ 160 (278) |+++|.+||+||||+||+|||||||+||++|+.+|++++... .+.++.|||||.+.+.|++.||+++||||++|.++|| T Consensus 81 v~~~A~~~~~~yvn~RWlgG~LTN~~~i~~~i~~l~~l~~~~~~~~~~~l~Kke~~~~~~~~~kl~~~~~Gi~~m~~~Pd 160 (256) T 2vqe_B 81 VRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPD 160 (256) T ss_dssp TTTTTTSSSCCEECSCCCTTTTTTHHHHHHHHHHHHHHHHHTTSTTSSCSCHHHHTTHHHHHHHHHHHSTTGGGCSSCCS T ss_pred HHHHHHHHCCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCC T ss_conf 99999995993362441287501746665676543577755124520125606888867899999986157522246897 Q ss_pred EEEEECCCCCCHHHHHHHHCCCEEEEECCCCCCCHHCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 7999438877123212343398145403677670011520321577268999999999999999999744 Q gi|254780779|r 161 LMFVVDTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQH 230 (278) Q Consensus 161 ~iiv~d~~~e~~Av~EA~kl~IPvIaivDTn~dp~~idypIP~NDds~~si~l~~~~i~~ai~~g~~~~~ 230 (278) +|||+||..|++||+||.+|||||||||||||||++|||||||||||++||+||++.+++||++|+..+. T Consensus 161 ~v~v~d~~~~~~AI~EA~~l~IPvIaivDTn~~p~~IdypIP~NDds~~sI~li~~~l~~ai~~g~~~~~ 230 (256) T 2vqe_B 161 AIFVVDPTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVV 230 (256) T ss_dssp EEEESCTTTTHHHHHHHHHTTCCCEECCCTTSCGGGCSEECCSCSSCHHHHHHHHHHHHHHHHTTTSCCC T ss_pred EEEECCCCHHHHHHHHHHHHCCCEEEEECCCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 7996377500889999998589557761389880005446546886198999999999999999840112 |
>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 | Back alignment and structure |
---|
>3ofo_B 30S ribosomal protein S2; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_B* 2wwl_B 3ofp_B 3i1m_B 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 3kc4_B 3or9_B 3ora_B 2qal_B* 1p87_B 2aw7_B 2avy_B ... | Back alignment and structure |
---|
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein, acetylation, cytoplasm, phosphorylation, polymorphism; 2.15A {Homo sapiens} | Back alignment and structure |
---|
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} | Back alignment and structure |
---|
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A {Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A | Back alignment and structure |
---|
>3jyv_B 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_B | Back alignment and structure |
---|
>1tk9_A Phosphoheptose isomerase 1; lipopolysaccharide biosynthesis, structural genomics, NYSGXRC, LPC1_camje, PSI, protein structure initiative; 2.10A {Campylobacter jejuni} SCOP: c.80.1.3 | Back alignment and structure |
---|
>2i2w_A Phosphoheptose isomerase; lipopolysaccharide biosynthesis; 1.95A {Escherichia coli} PDB: 2i22_A 1x94_A | Back alignment and structure |
---|
>2xbl_A Phosphoheptose isomerase; capsule; HET: M7P PGE PG4; 1.62A {Burkholderia pseudomallei} PDB: 2x3y_A | Back alignment and structure |
---|
>2yva_A DNAA initiator-associating protein DIAA; intermolecular disulfide bonding, putative phosphosugar binding protein, DNAA binding protein; 1.85A {Escherichia coli} | Back alignment and structure |
---|
>1x92_A APC5045, phosphoheptose isomerase; midwest centre for structural genomics, SIS domain, A/B protein, lipopolysaccharide biosynthesis, PSI; HET: M7P; 2.30A {Pseudomonas aeruginosa} SCOP: c.80.1.3 PDB: 3bjz_A | Back alignment and structure |
---|
>1nri_A Hypothetical protein HI0754; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.90A {Haemophilus influenzae} SCOP: c.80.1.3 | Back alignment and structure |
---|
>3dzc_A UDP-N-acetylglucosamine 2-epimerase; structural genomics, infectious diseases, isomerase, center for structural genomics of infectious diseases; 2.35A {Vibrio cholerae} | Back alignment and structure |
---|
>3cs3_A Sugar-binding transcriptional regulator, LACI family; structural genomics, protein structure initiative, PSI-2; 2.40A {Enterococcus faecalis V583} | Back alignment and structure |
---|
Homologous Domains in SCOP and MMDB Database
Detected by RPS-BLAST and HHsearch
Homologous Domains in SCOP70 (Version1.75) Database Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
Identity | Alignment graph | Length | Definition | E-value |
278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | |||
d2gy9b1 | 218 | c.23.15.1 (B:8-225) Ribosomal protein S2 {Escherichia c | 1e-65 | |
d2uubb1 | 234 | c.23.15.1 (B:7-240) Ribosomal protein S2 {Thermus therm | 5e-63 | |
d1vi6a_ | 193 | c.23.15.1 (A:) Ribosomal protein S2 {Archaeon Archaeogl | 8e-41 |
>d2gy9b1 c.23.15.1 (B:8-225) Ribosomal protein S2 {Escherichia coli [TaxId: 562]} Length = 218 | Back information, alignment and structure |
---|
class: Alpha and beta proteins (a/b) fold: Flavodoxin-like superfamily: Ribosomal protein S2 family: Ribosomal protein S2 domain: Ribosomal protein S2 species: Escherichia coli [TaxId: 562] Score = 243 bits (621), Expect = 1e-65 Identities = 110/218 (50%), Positives = 152/218 (69%), Gaps = 1/218 (0%) Query: 11 LLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRIL 70 +L++GV FGH+ WNPKM+ +IF RN HII+L +TVPM +AL ++ +R G+IL Sbjct: 1 MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKIL 60 Query: 71 FVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNKEN-QG 129 FV TK AS+ V +AA Q+ VN +WLGGM+TNWKTV QSI++L+DLE Sbjct: 61 FVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDK 120 Query: 130 FTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVAVVD 189 TKKE L R+ +KL+ +L GI+DMGGLPD +FV+D + E +AI+EA L IP+ A+VD Sbjct: 121 LTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVD 180 Query: 190 TNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIA 227 TNS+PD VD+VIPGNDD+ R++ L+ VA+ +G + Sbjct: 181 TNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRS 218 |
>d2uubb1 c.23.15.1 (B:7-240) Ribosomal protein S2 {Thermus thermophilus [TaxId: 274]} Length = 234 | Back information, alignment and structure |
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>d1vi6a_ c.23.15.1 (A:) Ribosomal protein S2 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 193 | Back information, alignment and structure |
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Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
Identity | Alignment graph | Length | Definition | Probability |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
d2uubb1 | 234 | Ribosomal protein S2 {Thermus thermophilus [TaxId: 274] | 100.0 | |
d2gy9b1 | 218 | Ribosomal protein S2 {Escherichia coli [TaxId: 562]} | 100.0 | |
d1vi6a_ | 193 | Ribosomal protein S2 {Archaeon Archaeoglobus fulgidus [ | 100.0 | |
d1x94a_ | 191 | Phosphoheptose isomerase GmhA1 {Vibrio cholerae [TaxId: | 97.13 | |
d1tk9a_ | 188 | Phosphoheptose isomerase GmhA1 {Campylobacter jejuni [T | 96.7 | |
d1x92a_ | 194 | Phosphoheptose isomerase GmhA1 {Pseudomonas aeruginosa | 96.68 | |
d1nria_ | 248 | Hypothetical protein HI0754 {Haemophilus influenzae [Ta | 94.04 | |
d1m3sa_ | 186 | Hypothetical protein YckF {Bacillus subtilis [TaxId: 14 | 93.01 | |
d1ir6a_ | 385 | Exonuclease RecJ {Thermus thermophilus [TaxId: 274]} | 92.15 |
>d2uubb1 c.23.15.1 (B:7-240) Ribosomal protein S2 {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
---|
class: Alpha and beta proteins (a/b) fold: Flavodoxin-like superfamily: Ribosomal protein S2 family: Ribosomal protein S2 domain: Ribosomal protein S2 species: Thermus thermophilus [TaxId: 274] Probab=100.00 E-value=0 Score=596.02 Aligned_cols=224 Identities=46% Similarity=0.792 Sum_probs=217.0 Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHH Q ss_conf 89998608860754776578856210200188167538999999999999999861078816996078235799999986 Q gi|254780779|r 8 IRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAK 87 (278) Q Consensus 8 ~~~Ll~ag~H~Gh~~~~wnPkM~~yI~g~rngihIIdL~kT~~~L~~A~~~i~~i~~~gg~ILFVgTk~~~~~~i~~~A~ 87 (278) +++||+|||||||++++|||+|+|||||.|||+|||||++|+.+|++|++|++.++++||+|||||||++++++|+++|+ T Consensus 1 I~~ll~ag~H~Gh~~~~wnpkm~~yIyg~rngihIIdL~kT~~~L~~A~~~i~~~~~~~g~iLfVgTk~~~~~~i~~~A~ 80 (234) T d2uubb1 1 VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTILFVGTKKQAQDIVRMEAE 80 (234) T ss_dssp CCCSSCTTSTTBCCCSCCCGGGGGGEEEEETTEEEECHHHHHHHHHHHHHHHHHHHHTTCCEEEECCSSSSHHHHHHHHH T ss_pred CHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHH T ss_conf 96688678866677674798874500156199389869999999999999999987237823677266877899999999 Q ss_pred HCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHH-HCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEC Q ss_conf 339831423345873234266655567789988763-0121267746788766556777643443322113595799943 Q gi|254780779|r 88 RSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELL-NKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVD 166 (278) Q Consensus 88 ~~~~~yV~~RWlGG~LTN~~ti~~si~~l~~l~~~~-~~~~~~~tkKe~~~~~r~~~kl~k~lgGi~~m~~lP~~iiv~d 166 (278) +||+||||+||+|||||||+||++|+++|++++.+. ++.++.+||||++.+.|++.||+++|||+++|+++||+|||+| T Consensus 81 ~~~~~yv~~RWlgG~LTN~~ti~~~i~~l~~l~~~~~~~~~~~~tkke~~~~~~~~~kl~k~~~Gi~~m~~~Pd~viv~d 160 (234) T d2uubb1 81 RAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVD 160 (234) T ss_dssp SSSCCEECSCCCTTTTTTHHHHHHHHHHHHHHHHHHSSTTGGGSCHHHHTHHHHHHHHHHHHSTTGGGCSSCCSEEEESC T ss_pred HHCCEEECCCEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHCCEEEEEEC T ss_conf 94998744435077223440000233206999987604752236558899888999999986222000110331688705 Q ss_pred CCCCCHHHHHHHHCCCEEEEECCCCCCCHHCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 88771232123433981454036776700115203215772689999999999999999997443 Q gi|254780779|r 167 TNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHS 231 (278) Q Consensus 167 ~~~e~~Av~EA~kl~IPvIaivDTn~dp~~idypIP~NDds~~si~l~~~~i~~ai~~g~~~~~~ 231 (278) |..|++||+||.+|||||||||||||||+.|||||||||||++||+||++.+++||++|++.... T Consensus 161 ~~~~~~Ai~Ea~~l~IPvIaivDTn~dp~~vdypIP~NDds~~sI~li~~~l~~ai~~gk~~~~~ 225 (234) T d2uubb1 161 PTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVE 225 (234) T ss_dssp TTTTHHHHHHHHHHTCCEEEEECTTSCGGGCSEEEESCSSCHHHHHHHHHHHHHHHHTTSSCCCC T ss_pred CCCCHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 77428899988860987789963378966786787788865999999999999999998336676 |
>d2gy9b1 c.23.15.1 (B:8-225) Ribosomal protein S2 {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
---|
>d1vi6a_ c.23.15.1 (A:) Ribosomal protein S2 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} | Back information, alignment and structure |
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>d1x94a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Vibrio cholerae [TaxId: 666]} | Back information, alignment and structure |
---|
>d1tk9a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Campylobacter jejuni [TaxId: 197]} | Back information, alignment and structure |
---|
>d1x92a_ c.80.1.3 (A:) Phosphoheptose isomerase GmhA1 {Pseudomonas aeruginosa [TaxId: 287]} | Back information, alignment and structure |
---|
>d1nria_ c.80.1.3 (A:) Hypothetical protein HI0754 {Haemophilus influenzae [TaxId: 727]} | Back information, alignment and structure |
---|
>d1m3sa_ c.80.1.3 (A:) Hypothetical protein YckF {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
---|
>d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
---|
Homologous Domains in MMDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against MMDB70 database
Identity | Alignment graph | Length | Definition | E-value |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter | ||
3bbn_B_ | 231 | (B:) Ribosomal protein S2; small ribosomal subunit | 2e-68 | |
2vqe_B_ | 256 | (B:) 30S ribosomal protein S2; tRNA-binding, rRNA- | 7e-63 | |
3bch_A_ | 253 | (A:) 40S ribosomal protein SA; laminin receptor, P | 4e-46 | |
3jyv_B_ | 193 | (B:) 40S ribosomal protein S0(A); eukaryotic ribos | 6e-45 | |
1vi6_A_ | 208 | (A:) 30S ribosomal protein S2P; structural genomic | 3e-43 | |
3i1m_B_46-241 | 196 | (B:46-241) 30S ribosomal protein S2; ribosome stru | 8e-52 | |
2zkq_b_ | 295 | (b:) 40S ribosomal protein SA; protein-RNA complex | 5e-48 |
>3bbn_B (B:) Ribosomal protein S2; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}Length = 231 | Back alignment and structure |
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Score = 253 bits (647), Expect = 2e-68 Identities = 85/226 (37%), Positives = 126/226 (55%), Gaps = 1/226 (0%) Query: 5 QFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVA 64 + +++E+GV FGH WNP+M YI + HII+L++T L +A ++ D + Sbjct: 3 NINLEEMMEAGVHFGHGTRKWNPRMSPYISAKCKGIHIINLTRTARFLSEACDLVFDASS 62 Query: 65 RGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLN 124 RG + L V TK++A+D V AA R+ + VN KWLGGM+TNW T + K RDL Sbjct: 63 RGKQFLIVGTKNKAADSVARAAIRARCHYVNKKWLGGMLTNWSTTETRLHKFRDLRMEQT 122 Query: 125 KEN-QGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIP 183 K++ ++R+ L+ L GI+ M GLPD++ +VD E A++E L IP Sbjct: 123 AGRLARLPKRDAAVVKRQLSHLQTYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIP 182 Query: 184 IVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQ 229 + ++DTN NPDL D IP NDD+ SI L + A +G + Sbjct: 183 TICLIDTNCNPDLADISIPANDDAIASIRLILTKLVFAICEGRSSY 228 |
>2vqe_B (B:) 30S ribosomal protein S2; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus}Length = 256 | Back alignment and structure |
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>3bch_A (A:) 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein, acetylation, cytoplasm, phosphorylation, polymorphism; 2.15A {Homo sapiens}Length = 253 | Back alignment and structure |
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>3jyv_B (B:) 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_BLength = 193 | Back alignment and structure |
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>1vi6_A (A:) 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A {Archaeoglobus fulgidus}Length = 208 | Back alignment and structure |
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>3i1m_B (B:46-241) 30S ribosomal protein S2; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 2qal_B* 1p87_B 2aw7_B 2avy_B 2i2u_B 2i2p_B* 2qan_B* 2qb9_B* 2qbb_B* 2qbd_B 2qbf_B ...Length = 196 | Back alignment and structure |
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>2zkq_b (b:) 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}Length = 295 | Back alignment and structure |
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Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 278 | 30S ribosomal protein S2 [Candidatus Liberibacter asiat | ||
3bbn_B_ | 231 | Ribosomal protein S2; small ribosomal subunit, spi | 100.0 | |
2vqe_B_ | 256 | 30S ribosomal protein S2; tRNA-binding, rRNA-bindi | 100.0 | |
2zkq_b_ | 295 | 40S ribosomal protein SA; protein-RNA complex, 40S | 100.0 | |
3bch_A_ | 253 | 40S ribosomal protein SA; laminin receptor, P40 ri | 100.0 | |
1vi6_A_ | 208 | 30S ribosomal protein S2P; structural genomics, ri | 100.0 | |
3jyv_B_ | 193 | 40S ribosomal protein S0(A); eukaryotic ribosome, | 100.0 | |
3i1m_B_46-241 | 196 | 30S ribosomal protein S2; ribosome structure, prot | 100.0 | |
2yva_A_ | 196 | DNAA initiator-associating protein DIAA; intermole | 95.76 | |
2i2w_A_ | 212 | Phosphoheptose isomerase; lipopolysaccharide biosy | 95.74 | |
2a3n_A_1-192 | 192 | Putative glucosamine-fructose-6-phosphate aminotra | 91.7 | |
1x92_A_ | 199 | APC5045, phosphoheptose isomerase; midwest centre | 90.74 | |
2uz1_A_182-367 | 186 | Benzaldehyde lyase; thiamine diphosphate, thiamine | 90.53 | |
1nri_A_1-233 | 233 | Hypothetical protein HI0754; structural genomics, | 96.88 | |
1tk9_A_ | 188 | Phosphoheptose isomerase 1; lipopolysaccharide bio | 95.67 | |
1vim_A_ | 200 | Hypothetical protein AF1796; structural genomics, | 95.08 | |
3beo_A_1-192_357-375 | 211 | UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, a | 94.59 | |
1jeo_A_ | 180 | MJ1247, hypothetical protein MJ1247; RUMP pathway, | 93.97 | |
1m3s_A_ | 186 | Hypothetical protein YCKF; structural genomics, PS | 92.76 | |
3fkj_A_1-173 | 173 | Putative phosphosugar isomerases; NP_459564.1, str | 92.39 | |
3knz_A_34-182 | 149 | Putative sugar binding protein; structural genomic | 93.66 | |
3c3j_A_25-192 | 168 | Putative tagatose-6-phosphate ketose/aldose isomer | 93.45 | |
3cvj_A_ | 243 | Putative phosphoheptose isomerase; NP_244191.1, st | 92.89 |
>3bbn_B (B:) Ribosomal protein S2; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} | Back alignment and structure |
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Probab=100.00 E-value=0 Score=560.51 Aligned_cols=226 Identities=38% Similarity=0.634 Sum_probs=221.2 Q ss_pred CCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHH Q ss_conf 24589998608860754776578856210200188167538999999999999999861078816996078235799999 Q gi|254780779|r 5 QFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVME 84 (278) Q Consensus 5 ~~t~~~Ll~ag~H~Gh~~~~wnPkM~~yI~g~rngihIIdL~kT~~~L~~A~~~i~~i~~~gg~ILFVgTk~~~~~~i~~ 84 (278) ++|+++||+||+||||++++|||+|+|||||.|||+|||||++|+.+|++|++|+++++++||+||||||+++++++|++ T Consensus 3 ~i~l~~ll~ag~HiGh~~~~wnp~m~~yI~g~rngi~IIdl~~T~~~L~~A~~~i~~i~~~~g~iLfV~t~~~~~~~i~~ 82 (231) T 3bbn_B 3 NINLEEMMEAGVHFGHGTRKWNPRMSPYISAKCKGIHIINLTRTARFLSEACDLVFDASSRGKQFLIVGTKNKAADSVAR 82 (231) T ss_dssp SCSSHHHHHTSSSSCCCSSCCCGGGGGGEEEEETTEEEECHHHHHHHTHHHHHHSHHHHTTTCCEEEECCCTTTHHHHHH T ss_pred CCCHHHHHHCCCCCCCCCCCCCCCCCCHHHCCCCCCEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHH T ss_conf 88899999728736766673798862500055199278859999999999999999997078833898636766689999 Q ss_pred HHHHCCCEECCCCCCCCCCCCHHHHHHHHHHHHHHHHH-HHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 98633983142334587323426665556778998876-30121267746788766556777643443322113595799 Q gi|254780779|r 85 AAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEEL-LNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMF 163 (278) Q Consensus 85 ~A~~~~~~yV~~RWlGG~LTN~~ti~~si~~l~~l~~~-~~~~~~~~tkKe~~~~~r~~~kl~k~lgGi~~m~~lP~~ii 163 (278) +|++||+|||++||+|||||||.|+++++.+|++++.+ .++.++.++|||.+.+.|++.||+++|+||++|.++||+|| T Consensus 83 ~a~~~~~~~v~~rWigG~LTN~~~i~~~i~~l~~l~~~~~~~~~~~~~kke~~~~~k~~~kl~k~~~Gi~~m~~~P~~ii 162 (231) T 3bbn_B 83 AAIRARCHYVNKKWLGGMLTNWSTTETRLHKFRDLRMEQTAGRLARLPKRDAAVVKRQLSHLQTYLGGIKYMTGLPDIVI 162 (231) T ss_dssp HHHHHTCEECCSSCCSCSSSCHHHHHHHHHHHHHHHHSTTSTTTTTSCHHHHHHHHHHHHHHTTSTTSTTSCCSCCSEEE T ss_pred HHHHCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHCCCCEEE T ss_conf 99866980431452477546652002567779999877623761147789999888888887640224100111451689 Q ss_pred EECCCCCCHHHHHHHHCCCEEEEECCCCCCCHHCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9438877123212343398145403677670011520321577268999999999999999999744 Q gi|254780779|r 164 VVDTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQH 230 (278) Q Consensus 164 v~d~~~e~~Av~EA~kl~IPvIaivDTn~dp~~idypIP~NDds~~si~l~~~~i~~ai~~g~~~~~ 230 (278) |+||..|++||+||.+|||||||+|||||||+.|||||||||||++||.|+++.+++||++|++.+. T Consensus 163 i~d~~~~~~ai~Ea~~l~IPvI~ivDTn~~p~~IdypIP~Ndds~~sI~li~~~l~~ai~~g~~~~~ 229 (231) T 3bbn_B 163 IVDQQEEYTALRECITLGIPTICLIDTNCNPDLADISIPANDDAIASIRLILTKLVFAICEGRSSYI 229 (231) T ss_dssp ESCTTTTHHHHHHHHTTTCCEEECCCSSSCCSSCSEECCCCSSSHHHHHHHHHHHHHHHHHTSSCCC T ss_pred EECCCCCHHHHHHHHHCCCCEEEEEECCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8316621898998986699769987279997657677636886699999999999999999887762 |
>2vqe_B (B:) 30S ribosomal protein S2; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} | Back alignment and structure |
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>2zkq_b (b:) 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} | Back alignment and structure |
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>3bch_A (A:) 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein, acetylation, cytoplasm, phosphorylation, polymorphism; 2.15A {Homo sapiens} | Back alignment and structure |
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>1vi6_A (A:) 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A {Archaeoglobus fulgidus} | Back alignment and structure |
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>3jyv_B (B:) 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_B | Back alignment and structure |
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>3i1m_B (B:46-241) 30S ribosomal protein S2; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 2qal_B* 1p87_B 2aw7_B 2avy_B 2i2u_B 2i2p_B* 2qan_B* 2qb9_B* 2qbb_B* 2qbd_B 2qbf_B ... | Back alignment and structure |
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>2yva_A (A:) DNAA initiator-associating protein DIAA; intermolecular disulfide bonding, putative phosphosugar binding protein, DNAA binding protein; 1.85A {Escherichia coli} | Back alignment and structure |
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>2i2w_A (A:) Phosphoheptose isomerase; lipopolysaccharide biosynthesis; 1.95A {Escherichia coli} PDB: 2i22_A 1x94_A | Back alignment and structure |
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>2a3n_A (A:1-192) Putative glucosamine-fructose-6-phosphate aminotransferase; 16423107, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Salmonella typhimurium LT2} | Back alignment and structure |
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>1x92_A (A:) APC5045, phosphoheptose isomerase; midwest centre for structural genomics, SIS domain, A/B protein, lipopolysaccharide biosynthesis, PSI; HET: M7P; 2.30A {Pseudomonas aeruginosa} | Back alignment and structure |
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>2uz1_A (A:182-367) Benzaldehyde lyase; thiamine diphosphate, thiamine pyrophosphate, benzoin, flavoprotein; HET: TPP; 1.65A {Pseudomonas fluorescens} PDB: 2ag1_A* 2ag0_A* 2uz1_B* 3d7k_A* | Back alignment and structure |
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>1nri_A (A:1-233) Hypothetical protein HI0754; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.90A {Haemophilus influenzae} | Back alignment and structure |
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>1tk9_A (A:) Phosphoheptose isomerase 1; lipopolysaccharide biosynthesis, structural genomics, NYSGXRC, LPC1_camje, PSI, protein structure initiative; 2.10A {Campylobacter jejuni} | Back alignment and structure |
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>1vim_A (A:) Hypothetical protein AF1796; structural genomics, unknown function; 1.36A {Archaeoglobus fulgidus} | Back alignment and structure |
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>3beo_A (A:1-192,A:357-375) UDP-N-acetylglucosamine 2-epimerase; UDP-GLCNAC, allosteric, regulation, isomerase; HET: UD1 UDP; 1.70A {Bacillus anthracis} PDB: 1o6c_A | Back alignment and structure |
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>1jeo_A (A:) MJ1247, hypothetical protein MJ1247; RUMP pathway, phosphosugar, 3-hexulose-6-phosphate isomerase, PHI, structural genomics; HET: CME CIT; 2.00A {Methanocaldococcus jannaschii} | Back alignment and structure |
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>1m3s_A (A:) Hypothetical protein YCKF; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.95A {Bacillus subtilis} | Back alignment and structure |
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>3fkj_A (A:1-173) Putative phosphosugar isomerases; NP_459564.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.12A {Salmonella typhimurium LT2} | Back alignment and structure |
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>3knz_A (A:34-182) Putative sugar binding protein; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; 2.50A {Salmonella enterica subsp} | Back alignment and structure |
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>3c3j_A (A:25-192) Putative tagatose-6-phosphate ketose/aldose isomerase; structural genomics, PSI, MCSG, protein structure initiative; 1.80A {Escherichia coli K12} | Back alignment and structure |
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>3cvj_A (A:) Putative phosphoheptose isomerase; NP_244191.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 2.00A {Bacillus halodurans c-125} | Back alignment and structure |
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