• Backbone structures are obtained using ProteinViewer, where N-terminal is colored red and C-terminal blue.
• Click the images to view larger image.
• Click PDB IDs to view the corresponding PDB file
• See the bottom for explanation of the DSSP codes and the 5-tile codes. 

(1) Bacterial Luciferase (1luc) and Nonfluorescent Flavoprotein (1nfp)

			"The sequence of 1luc beta-subunit and 1nfp are 30% identical, the structures of the common regions are very similar, both proteins belong to the lux bacterial operon, and homology between them was suggested before the structure of 1luc was solved." (Grishin, 2001)
1luc (Res1-352)	1nfp (Res2-227)

1luc FGNFLLTYQPPELSQTEVMKRLVNLGKASEGCG FDTVWLLEHHFTEFGLLGNPYVAAAHLLGATETLNVGTAAIVLPTAHPVRQAEDVNL code 00000RR000QBG0QAAAAAAAAAAAABAAABR 0R00000000RGQB0RGRGQAAAAAAAAABG0000000300R1ABG0QAAAAAAAAA LCS  00000  000                      R 0          G  0R R             0              0QAAAAAAAAA code 00000  000                      RG0          G  0R R             0              0QAAAAAAAAA 1nfp WNYGV  FFL                      NFY          H  VG Q             Q              EPSLTMSNALE 1luc LDQM SKGRFRFG   ICRGLYDKDFRVFGTD MDNSRALMDCWYDLMKEGFNEGYIAADNEH IKFP KIQLNPSAYTQG GAPVYVVAESASTTEW code AAAA BRRRG000   00R00GQAAAAABR00 QABQAAAAAAAAAAAAAAAG0RG00000QB 0000 00000O00RG0R 000000R0R0QAAAAA LCS  AAAA B    000   00 00         00 Q B                   G0000 QB 0000 0000    R  R 0000  R R0QAAAAA code AAAAAB    0001RR00 00         001Q B                   G0000 QBR0000R0000    R  RG0000  R R0QAAAAA 1nfp TLRIID    EDTSIYDV VA         FSEH H                   IDKSY NDETKLAPFVSL    G  KQIHVL  A TSPETVVK 1luc AAERGLPMILSWIINTHEKKAQLDLYNEVATEHGY DVTKIDHCLSYITSVD  HDSNRAKDICRNF  LGHWYDSYVNAT KIFRIDYSYE  INPV code AAABR000000QBG0QAAAAAAAAAAAAAAAABO0 RQA80R00000R0000  QGQAAAAAAAAAA  AAAAAAAAAAAB 0ROJQABQAA  BGR0 LCS  AAABR000000QBG0QAAAAAAAAAAAAAAAAB 0 RQ  0 00000 0000  QGQAAAAAAAAAA  AAAAA      B 0R  QA  AA  BG 0 code AAABR000000QBG0QAAAAAAAAAAAAAAAABR00RQB 0 00000 000000QGQAAAAAAAAAAHQAAAAA      BR0RG0QA  AAAABG 0 1nfp AAKYGMPLLFKWDDSQQKRIELLNHYQAAAAKFNVDIAN V RHRLM LFVNVNDNPTQAKAELSIYLEDYLSY      TQAETSID  EIINSN A 1luc GT PEECIAIIQQDID ATGID NICCGF EANGSEEEIIASMKLFQSDVMPY code 00 QAAAAAAAAAAAA B0R0R G0000P QBJ00QAAAAAAAAAAA001QAG LCS  00 QAAAAAAAAAAAA B R R G0000  QB   QAAAAAAAAAAA    A code 000QAAAAAAAAAAAAAB R RRG00000RQBRRGQAAAAAAAAAAA    AAAAAAAAAB 1bfp AGNFDTCLHHVAEMAQGL N NKVDFLFCFESMKDQENKKSLMINFD    KRVINYRKEH *RATIO :  lcs/trimmed_seq_a = 0.577 (=  184/  319), lcs/trimmed_seq_b = 0.829 (=  184/  222)

Structural alignment by ComSubstruct

DSSP ..LEEEEEELLLLL.lLLLHHHHHHHHHHHHHHLH..HHLLLEEEELLlllllllllllhhhhhhhhhhhlllleeeeeeeehhhllhhhhhhhhhh 1luc ..MKFGNFLLTYQP.pELSQTEVMKRLVNLGKASE..GCGFDTVWLLEhhftefgllgnpyvaaahllgatetlnvgtaaivlptahpvrqaedvnl            | | |            |                 | |   | 1bfp tkWNYGVFFLNFYHvgQQEPSLTMSNALETLRIIDedTSIYDVVAFSE................................................. DSSP llLLEEEEEELLLLllLLLHHHHHHHHHHHHHHHHhlLLLEEEEEEEL................................................. DSSP hhhhhllleeeeeelLLLHhhhhhhlLLHHHHHhhhhhhhhhhhhhhhhleeeeelllleeeeeellllllllllLLEEELLLLHHHHHH 1luc ldqmskgrfrfgicrGLYDkdfrvfgTDMDNSRalmdcwydlmkegfnegyiaadnehikfpkiqlnpsaytqggAPVYVVAESASTTEW                                                                                     | | |  | 1bfp .............hhIDKS.......YNDETKL...................................apfvslgKQIHVLATSPETVVK DSSP .............llLLLL.......LLLLLLL...................................lleeeelLEEEEELLLHHHHHH DSSP HHHLLLLLEELLLLLHHHHHHHHHHHHHHHHHLLLLHHHLLLEEEEELEELLLHHHHHHHHHHHHHHHHHHHHhhhhllLLLH.HHHHLLE 1luc AAERGLPMILSWIINTHEKKAQLDLYNEVATEHGYDVTKIDHCLSYITSVDHDSNRAKDICRNFLGHWYDSYVnatkifRIDY.SYEINPV      ||  | |    |          |  |   |     |     | |     |      ||      |                       | 1bfp AAKYGMPLLFKWDDSQQKRIELLNHYQAAAAKFNVDIANVRHRLMLFVNVNDNPTQAKAELSIYLEDYLSYTQ....aeTSIDeIINSNAA DSSP HHHLLLLEEELLLLLHHHHHHHHHHHHHHHHHHLLLLLLLLEEEEEEEEELLLHHHHHHHHHHHHHHHHHHHL....llLLHHhHHHLLEE DSSP ELHHHHHHHHHHHHHHHL.LLEEEEELHHHLLHHHHHHHHHHHHHH....lhhhll 1luc GTPEECIAIIQQDIDATG.IDNICCGFEANGSEEEIIASMKLFQSD....vmpylk       |    |                    ||     |     |  | 1bfp GNFDTCLHHVAEMAQGLNnKVDFLFCFESMKDQENKKSLMINFDKRvinyrkehnl DSSP ELHHHHHHHHHHHHHHLLlLEEEEEELLLLLLHHHHHHHHHHHHHHhhhhhhhlll *Z-score 17.0  AR 197  RMSD 2.7A  SI 17%

Structural alignment by DaliLite

(2) NADH Peroxidase (1npx) and Lactate Dehydrogenase (1ldn)

			"Central beta-strands that form the core of the structure are composed of identical amino acids (VVVIG and DADLVV). The nucleotide-binding modes in these proteins are very similar and this similarity is reflected in the seqiences: GXGXXG...   Therefore it is likely that 1npx and 1ldn are homologous. However, ... different folds for these homologs." (Grishin, 2001)
1npx (Res149-315)	1ldn (ResA20-265)

1npx NVVVIGSGYI GIEAAEAFAKAGKK VTVIDILDRPLGVYLDKEFTDVLTEEMEANN    ITIATGETVE      R YEGDG RVQKVV TDK code 000000RGQA AAAAAAAAAABR00 00000RGO00RQB000QAAAAAAAAAAAAB3    00000R0000      0 0000R 000000 0R0 LCS  000000RG A AAAAAAAAA BR00 00000   0  QB   QAAAAAAAAAAAAB     00000 0000      0 0000R 000000 0 0 code 000000RG1AGAAAAAAAAA BR00R00000   0  QB   QAAAAAAAAAAAABQABGR00000 0000QAAAAG0R0000RG000000O0 0 1ldn RVVVIGAGFVGASYVFALMN QGIADEIVLI   D  AN   ESKAIGDAMDFNHGKVFAPKPVDI WHGDYDDCRDADLVVICAGANQKPGE T 1npx                        NA YDADLVVVA            VGV    RPNT A            WL K G  TLELHPNGLIKTDEYMRTSEPD  code                        00 000R0000R            R00    00RH Q            AB 0 Q  G0000QBR00000QBR00RG0R LCS                         00 000 0000R            R00    00R  Q            AB 0 Q  G0000   000  QB 00  0R   code 1QABHQAAAAAAAHAAAAAAABR00G000 0000RQAAAAAAAAAABR00QAAG00R0RQAAAAAAAAAAAHABO00QABG0000   000RGQB 00  0RQA 1ldn RLDLVDKNIAIFRSIVESVMASGFQGLFL VATNPVDILTYATWKFSGLPHERVIGSGTILDTARFRFLLGEYFSVAPQNVHAYI   IGEHGDT EL  PVWS 1npx VFAV   GD   AT LIKYN            PAD     TEVNIALATNARKQGRFAVKNL code G000   0Q   BG 0000P            B0R     G000000QAAAAAAAAAAAABR LCS  G000   0Q   B  00               B       G0000  QAAAAAAAAAAAA code G000RRG0QAAABA800QGQAAAAAAAAAAAABQAAAAAAG00001 QAAAAAAAAAAAAAA 1ldn QAYIGVMPIRKLVESKGEEAQKDLERIFVNVRDAAYQIIEKKGATY YGIAMGLARVTRAIL *RATIO :  lcs/trimmed_seq_a = 0.798 (=  130/  163), lcs/trimmed_seq_b = 0.537 (=  130/  242)

Structural alignment by ComSubstruct

DSSP LLEEEEELLLHHHHHHHHHHH.HLLL.EEEEEELLLLLllllllhhhhhhhHHHHHH........lLEEEEellleeeeelllllleeeell 1npx VNNVVVIGSGYIGIEAAEAFA.KAGK.KVTVIDILDRPlgvyldkeftdvlTEEMEA........nNITIAtgetveryegdgrvqkvvtdk        ||||| |  |     |            ||                                  |          1ldn GARVVVIGAGFVGASYVFALMnQGIAdEIVLIDANESK.........aigdAMDFNHgkvfapkpvDIWHG....................d DSSP LLEEEEELLLHHHHHHHHHHHhHLLLlEEEEELLLHHH.........hhhhHHHHHHhllllllllEEEEL....................l DSSP LEEE..LLEEEELLLLLLLlhhhllllllllllllllllllllllll 1npx NAYD..ADLVVVAVGVRPNtawlkgtlelhpngliktdeymrtsepd            |||||   | 1ldn YDDCrdADLVVICAGANQK............................ DSSP HHHLllLLEEEELLLLLLL............................ DSSP lllLHHH.....................................................................................lLEEEHHH. 1npx vfaVGDA.....................................................................................tLIKYNPA.                                                                                                        |  1ldn .pgETRLdlvdkniaifrsivesvmasgfqglflvatnpvdiltyatwkfsglphervigsgtildtarfrfllgeyfsvapqnvhayiigehGDTELPVw DSSP .llLLLHhhhhhhhhhhhhhhhhhhhhlllleeeellllhhhhhhhhhhhhlllhhheeelllhhhhhhhhhhhhhhhlllhhheeeeeelllLLLLEEEe DSSP .........................leeellllhHHHH..............hhhhhhhhllll 1npx .........................dtevnialaTNAR..............kqgrfavknlee       1ldn sqayigvmpirklveskgeeaqkdlerifvnvrdAAYQiiekkgatyygiamglarvtrailhn DSSP eeeeelleelllllhhhlllhhhhhhhhhhhhhhHHHHhhhhhllllhhhhhhhhhhhhhhhll *Z-score 3.8  AR 79  RMSD 8.3A  SI 23%

Structural alignment by DaliLite

[The DSSP code]

• H = alpha helix
• B = residue in isolated beta-bridge
• E = extended strand, participates in beta ladder
• G = 3-helix (3/10 helix)
• I = 5 helix (pi helix)
• T = hydrogen bonded turn
• S = bend
• L = no assigned structure

[The 5-tile code]

• 0 = DDDDD    (extended strand, small blue spheres)
• 1 = DDDDU
• 2 = DDDUD
• 3 = DDDUU
• 8 = DUDDD
• 9 = DUDDU
• A = DUDUD    (helix, large red spheres)
• B = DUDUU    (turn, large yellow spheres)
• G = UDDDD
• H = UDDDU
• I = UDDUD
• J = UDDUU
• O = UUDDD
• P = UUDDU
• Q = UUDUD    (turn, large yellow spheres)
• R = UUDUU    (turn, large yellow spheres)