Citrus Sinensis ID: 010135

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------
MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
ccccccEEEEEEEEEccccccccccccEEEEEEEccccccEEEEEcccccccccccccccccccccccccEEEEEcccccccccEEEEEEEEccccccccEEEEEEccccEEEEEEccccccccccccEEcccccccccEEEEEEEEcccccEEEEcccccccccEEEccEEEEEEccccccccccHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEEEccccccccccEEEEcccccccccccccccccEEEEEEcccccEEEccEEcEEEEEEEEEccEEEEEEEEEEEEEEEccEEEEccEEEEccccccccEEEccccccccccccccccccccccEEcccccccccccccccccccccccccEEEEcccccccccEEEEEEEEccccccccEEEEEEEEcccccccccEEEEEEEEcccccEEEEEEcccccccccccccccccccEEEEEEEEEEEEEEEEEEEcccEEEEccEEEEEEEcccccccEEEEEEEEEEccccc
cccccccEEEEEEEccccccccccHcHEEEEEEcccccccEEEEEcccccccccccHcccccccccccccHEEccccccccccccEcccEEEccccccccEEEEEEccccEEEEEEEcccccccccccHHHcHcccccEEEHHEEcccccccccccccccccccccccccEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEcccccccccccEEEEEcccccccEEEEEcccEEEEEEEccccEEEEccccccEEEEEEEEcccEEEEEEccEEEEEcccEEEcccEEEEccccccEEEEEccccccccccccccccccccccccccccHHHHHHccHHHHHHHcccccEEEEEccccccccccEEEEEEEccccccccccEEEEEEccccccccccEEEEEEHHHHcccccEEEEcccccccccccccccccccEEEccEEccEEEEEEEEcHHHHEccccEEEEEEccccccccEEEEEEEEEcccccc
mlrgssgfySYAIYEHLkewpaftlgqtrFTFKLRKEKFRYMVIAdnrhrqmplpedlstgrgqplaypeavqlvnptdpehqgevddkyqyscenkdlkvhgwicrttpvgfwliipsdefrsggplkqnltshvgptTLAVFLSGHYagkymethigqdepwkkvfGPVFIYlnsaadgddplwLWEDAKIKMMSEvqswpynfpasedfqkseergcvsgrllvqdsndvisangayvglappgdvgswqteckdyqfwttadedgcfsiknirtgnynlyawvpgfvgdyrsDALVTItsgsnikmgdlvyepprdgptlweigipdrsarefnvpdpdpkyvnrlfvnhpdrfrqyglwsrytelypnedlvyTIGVSDYSKDWFFAQVVREMdnktyqgtTWQIKFKLdhvdrnssYKLRVAIASATLAELQVrvndpnanrplfttgligrdnaiaRHGIHGLYLLYhvnipgtrfiegentiflkqprctspfqgimydyirlegppvs
MLRGSSGFYSYAIYEHLkewpaftlgqtrfTFKLRKEKFRYMVIadnrhrqmplpeDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITsgsnikmgdlvyEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAElqvrvndpnanrPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIrlegppvs
MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
******GFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIAD******************************************KYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPA**********GCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVP*PDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRL******
*LRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP**
MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLP********QPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
****SSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP**
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MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query517 2.2.26 [Sep-21-2011]
Q8RJP2578 Rhamnogalacturonate lyase yes no 0.852 0.762 0.254 2e-26
Q5AZ85660 Rhamnogalacturonate lyase yes no 0.907 0.710 0.243 4e-18
B8N5T6663 Probable rhamnogalacturon N/A no 0.928 0.723 0.227 2e-16
Q0C7K7660 Probable rhamnogalacturon N/A no 0.909 0.712 0.224 2e-15
Q4WR79658 Probable rhamnogalacturon no no 0.912 0.717 0.226 7e-13
B0XPA2658 Probable rhamnogalacturon N/A no 0.912 0.717 0.226 7e-13
A5ABH4706 Probable rhamnogalacturon yes no 0.887 0.650 0.225 1e-12
A1D144658 Probable rhamnogalacturon N/A no 0.920 0.723 0.213 1e-11
Q2U5P7695 Probable rhamnogalacturon no no 0.777 0.578 0.240 1e-09
Q5B5P1 1041 Probable rhamnogalacturon no no 0.740 0.367 0.239 2e-09
>sp|Q8RJP2|RHIE_DICD3 Rhamnogalacturonate lyase OS=Dickeya dadantii (strain 3937) GN=rhiE PE=1 SV=1 Back     alignment and function desciption
 Score =  120 bits (301), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 133/523 (25%), Positives = 199/523 (38%), Gaps = 82/523 (15%)

Query: 1   MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLST 60
           M R  SG YSY +  +    P  T+ + R  ++    +   +                S 
Sbjct: 129 MTRDVSGLYSYVVAANTGSAPV-TVSELRNVYRFDATRLDTLFN--------------SI 173

Query: 61  GRGQPLAYPEAVQLVNPTDPEHQ---GEVDDKYQYSCENKDLKVHGWICRTTPVGFWLII 117
            RG PL Y E  QL    D   +   G V  KY ++   ++ +   W       G W++ 
Sbjct: 174 RRGTPLLYDELEQLPKVQDETWRLPDGSVYSKYDFAGYQRESRY--WGVMGNGYGAWMVP 231

Query: 118 PSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNS 177
            S E+ SG  LKQ L  H     L      H+    M    G    ++K++GP  +Y+N 
Sbjct: 232 ASGEYYSGDALKQELLVHQDAIILNYLTGSHFGTPDMVAQPG----FEKLYGPWLLYINQ 287

Query: 178 AADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISAN 237
             D +    L  D   +   E  SWPY +   +D +   +R  VSGRL  +  +  +  N
Sbjct: 288 GNDRE----LVADVSRRAEHERASWPYRW--LDDARYPRQRATVSGRLRTEAPHATVVLN 341

Query: 238 GAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSD 297
            +           ++  +   Y F    + DG FS+ N+  G Y L A+  G        
Sbjct: 342 SS---------AENFDIQTTGYLFSARTNRDGRFSLSNVPPGEYRLSAYADGGTQIGLLA 392

Query: 298 ALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDR 357
                  G   ++G +    P   P  W IG  DR A EF             F + P +
Sbjct: 393 QQTVRVEGKKTRLGQIDARQP--APLAWAIGQADRRADEFR------------FGDKPRQ 438

Query: 358 FRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHV 417
           +R    W   TE+    DL + IG S   KDW++AQ          Q  +W I F     
Sbjct: 439 YR----WQ--TEV--PADLTFEIGKSRERKDWYYAQT---------QPGSWHILFNTRTP 481

Query: 418 DRNSSYKLRVAIASATLAELQVRVNDPN----ANRPLFTTGLIGRDNAIARHGIH-GLYL 472
           ++   Y L +AIA+A+   +    + P      N  L TT     D +I R  +  G Y 
Sbjct: 482 EQ--PYTLNIAIAAASNNGMTTPASSPQLAVKLNGQLLTTLKYDNDKSIYRGAMQSGRYH 539

Query: 473 LYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 515
             H+ +P     +G N I L+          +MYD I L   P
Sbjct: 540 EAHIPLPAGALQQGGNRITLELLGGM-----VMYDAITLTETP 577
Degrades the rhamnogalacturonan I (RG-I) backbone of pectin. Is required for the full virulence of E.chrysanthemi strain 3937 as it is involved in rotting of plant tissue.
Dickeya dadantii (strain 3937) (taxid: 198628)
EC: 4EC: .EC: 2EC: .EC: 2EC: .EC: -
>sp|Q5AZ85|RGLB_EMENI Rhamnogalacturonate lyase B OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=rglB PE=2 SV=2 Back     alignment and function description
>sp|B8N5T6|RGLB_ASPFN Probable rhamnogalacturonate lyase B OS=Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / NRRL 3357 / JCM 12722 / SRRC 167) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|Q0C7K7|RGLB_ASPTN Probable rhamnogalacturonate lyase B OS=Aspergillus terreus (strain NIH 2624 / FGSC A1156) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|Q4WR79|RGLB_ASPFU Probable rhamnogalacturonate lyase B OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|B0XPA2|RGLB_ASPFC Probable rhamnogalacturonate lyase B OS=Neosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|A5ABH4|RGLB_ASPNC Probable rhamnogalacturonate lyase B OS=Aspergillus niger (strain CBS 513.88 / FGSC A1513) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|A1D144|RGLB_NEOFI Probable rhamnogalacturonate lyase B OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) GN=rglB PE=3 SV=1 Back     alignment and function description
>sp|Q2U5P7|RGLC_ASPOR Probable rhamnogalacturonate lyase C OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) GN=rglC PE=3 SV=1 Back     alignment and function description
>sp|Q5B5P1|RGLC_EMENI Probable rhamnogalacturonate lyase C OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=rglC PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query517
224081899 629 predicted protein [Populus trichocarpa] 0.996 0.818 0.787 0.0
359492972 643 PREDICTED: probable rhamnogalacturonate 0.996 0.800 0.752 0.0
255572840 633 lyase, putative [Ricinus communis] gi|22 0.998 0.815 0.743 0.0
224063361 626 predicted protein [Populus trichocarpa] 0.990 0.817 0.742 0.0
356515685 643 PREDICTED: probable rhamnogalacturonate 1.0 0.804 0.730 0.0
255572842 642 lyase, putative [Ricinus communis] gi|22 0.998 0.803 0.732 0.0
356510088 643 PREDICTED: rhamnogalacturonate lyase B-l 1.0 0.804 0.721 0.0
357466851 715 Rhamnogalacturonate lyase [Medicago trun 0.998 0.721 0.739 0.0
302142095 656 unnamed protein product [Vitis vinifera] 0.996 0.785 0.732 0.0
356515683 636 PREDICTED: rhamnogalacturonate lyase-lik 0.998 0.811 0.728 0.0
>gi|224081899|ref|XP_002306520.1| predicted protein [Populus trichocarpa] gi|222855969|gb|EEE93516.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  852 bits (2201), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/518 (78%), Positives = 450/518 (86%), Gaps = 3/518 (0%)

Query: 1   MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLST 60
           +LRGSSGFYSYAIYEHL+EWP F +G+TR TFKLRK+KF+YM IADNR R MPLP+D   
Sbjct: 99  LLRGSSGFYSYAIYEHLQEWPGFDIGETRITFKLRKDKFQYMAIADNRQRLMPLPDDRLP 158

Query: 61  GRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSD 120
           GR Q LAYPEAV LVNP  PE  GEVDDKYQYSCENKD +VHGWIC   PVGFW I PSD
Sbjct: 159 GRCQALAYPEAVILVNPKLPELTGEVDDKYQYSCENKDNQVHGWICFKPPVGFWQITPSD 218

Query: 121 EFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAAD 180
           EFR+ GPLKQNLTSHVGPTTLA+F S HYAGK +   I   EPWKKVFGPVFIYLNSA++
Sbjct: 219 EFRTAGPLKQNLTSHVGPTTLAMFHSSHYAGKDLVLSISPGEPWKKVFGPVFIYLNSASN 278

Query: 181 GDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQD---SNDVISAN 237
           G+DPL+LWEDAK++MM+EVQSWPY+FPASEDFQKSE+RG V GRLLV+D   S+D I A+
Sbjct: 279 GEDPLFLWEDAKMQMMAEVQSWPYSFPASEDFQKSEQRGNVCGRLLVKDRNISDDYILAS 338

Query: 238 GAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSD 297
           GAYVGLAPPGDVGSWQTECKDYQFWT ADE+G FSIKNIRTG+YNLYAWVPGF+GDYR D
Sbjct: 339 GAYVGLAPPGDVGSWQTECKDYQFWTRADENGYFSIKNIRTGDYNLYAWVPGFLGDYRWD 398

Query: 298 ALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDR 357
           A+V I SG ++ MGDLVYEPPRDGPTLWEIGIPDRSA EF +P PDPK++N L+ NHPDR
Sbjct: 399 AIVNIISGCDMDMGDLVYEPPRDGPTLWEIGIPDRSAAEFYIPGPDPKFMNNLYANHPDR 458

Query: 358 FRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHV 417
           FRQYGLW RY +LYP+ DLVYT+G+SDY KDWFFAQVVR  D+ T  GTTWQIKFKLD V
Sbjct: 459 FRQYGLWGRYADLYPDTDLVYTVGLSDYRKDWFFAQVVRRKDDDTQVGTTWQIKFKLDKV 518

Query: 418 DRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVN 477
           DRNSSYKLRVAIASATLAELQVRVND  A RPLFT+GLIGRDNAIARHGIHGLY LY+VN
Sbjct: 519 DRNSSYKLRVAIASATLAELQVRVNDAKAQRPLFTSGLIGRDNAIARHGIHGLYRLYNVN 578

Query: 478 IPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 515
           IPG R +EGENTIFL QPRCTSPFQG+MYDYIRLEGPP
Sbjct: 579 IPGARLVEGENTIFLTQPRCTSPFQGLMYDYIRLEGPP 616

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359492972|ref|XP_002285626.2| PREDICTED: probable rhamnogalacturonate lyase B-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255572840|ref|XP_002527352.1| lyase, putative [Ricinus communis] gi|223533271|gb|EEF35024.1| lyase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224063361|ref|XP_002301112.1| predicted protein [Populus trichocarpa] gi|222842838|gb|EEE80385.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356515685|ref|XP_003526529.1| PREDICTED: probable rhamnogalacturonate lyase B-like [Glycine max] Back     alignment and taxonomy information
>gi|255572842|ref|XP_002527353.1| lyase, putative [Ricinus communis] gi|223533272|gb|EEF35025.1| lyase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356510088|ref|XP_003523772.1| PREDICTED: rhamnogalacturonate lyase B-like [Glycine max] Back     alignment and taxonomy information
>gi|357466851|ref|XP_003603710.1| Rhamnogalacturonate lyase [Medicago truncatula] gi|355492758|gb|AES73961.1| Rhamnogalacturonate lyase [Medicago truncatula] Back     alignment and taxonomy information
>gi|302142095|emb|CBI19298.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356515683|ref|XP_003526528.1| PREDICTED: rhamnogalacturonate lyase-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query517
TAIR|locus:2024331675 AT1G09910 [Arabidopsis thalian 0.994 0.761 0.712 1.5e-211
TAIR|locus:2024427617 AT1G09890 [Arabidopsis thalian 0.992 0.831 0.685 6.9e-205
TAIR|locus:2136007646 AT4G24430 [Arabidopsis thalian 0.998 0.798 0.652 2.1e-194
TAIR|locus:2024417631 AT1G09880 [Arabidopsis thalian 0.994 0.814 0.626 7.6e-183
TAIR|locus:2121095667 AT4G38030 [Arabidopsis thalian 0.986 0.764 0.567 1.8e-165
TAIR|locus:2066040677 AT2G22620 [Arabidopsis thalian 0.982 0.750 0.582 3.4e-164
TAIR|locus:2121090678 AT4G37950 [Arabidopsis thalian 0.982 0.749 0.566 4.3e-157
TAIR|locus:2200390248 AT1G65210 "AT1G65210" [Arabido 0.355 0.741 0.589 1.9e-58
ASPGD|ASPL0000007043660 rglB [Emericella nidulans (tax 0.887 0.695 0.252 6.7e-20
UNIPROTKB|Q5AZ85660 rglB "Rhamnogalacturonate lyas 0.887 0.695 0.252 6.7e-20
TAIR|locus:2024331 AT1G09910 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2045 (724.9 bits), Expect = 1.5e-211, P = 1.5e-211
 Identities = 369/518 (71%), Positives = 423/518 (81%)

Query:     1 MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLST 60
             MLRGSSG YSY IYEHLK+WP F LG+TR  FKLRK+KF YM +AD+R R MP P+DL  
Sbjct:   158 MLRGSSGVYSYGIYEHLKDWPGFELGETRIAFKLRKDKFHYMAVADDRKRIMPFPDDLCK 217

Query:    61 GRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSD 120
             GR Q L Y EA  L  P DP  QGEVDDKYQYSCENKDL+VHGWI    PVGFW I PS+
Sbjct:   218 GRCQTLDYQEASLLTAPCDPRLQGEVDDKYQYSCENKDLRVHGWISFDPPVGFWQITPSN 277

Query:   121 EFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAAD 180
             EFRSGGPLKQNLTSHVGPTTLAVF S HYAGK M       EPWKKV+GPVFIYLNS A+
Sbjct:   278 EFRSGGPLKQNLTSHVGPTTLAVFHSTHYAGKTMMPRFEHGEPWKKVYGPVFIYLNSTAN 337

Query:   181 GDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQD---SNDVISAN 237
             GDDPL LW+DAKIKMM+EV+ WPY+F AS+D+ KSEERG   GRLL++D   +ND+ISA 
Sbjct:   338 GDDPLCLWDDAKIKMMAEVERWPYSFVASDDYPKSEERGTARGRLLIRDRFINNDLISAR 397

Query:   238 GAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSD 297
             GAYVGLAPPGD GSWQ ECK YQFW  ADE G FSI N+R G YNLYAWVP F+GDY + 
Sbjct:   398 GAYVGLAPPGDSGSWQIECKGYQFWAIADEAGYFSIGNVRPGEYNLYAWVPSFIGDYHNG 457

Query:   298 ALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDR 357
              +V +TSG  I+MGD+VYEPPRDGPTLWEIGIPDR A EF +PDPDP  VNR+ V+H DR
Sbjct:   458 TIVRVTSGCMIEMGDIVYEPPRDGPTLWEIGIPDRKASEFFIPDPDPTLVNRVLVHHQDR 517

Query:   358 FRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHV 417
             FRQYGLW +YT++YPN+DLVYT+GVSDY +DWFFA V R+  +  ++GTTWQI F L+++
Sbjct:   518 FRQYGLWKKYTDMYPNDDLVYTVGVSDYRRDWFFAHVPRKKGD-VHEGTTWQIIFNLENI 576

Query:   418 DRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVN 477
             D+ ++YKLRVAIASATLAELQ+R+ND  A RPLFTTGLIGRDN+IARHGIHG+Y+LY VN
Sbjct:   577 DQKANYKLRVAIASATLAELQIRINDAEAIRPLFTTGLIGRDNSIARHGIHGVYMLYAVN 636

Query:   478 IPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 515
             IPG R ++G+NTIFLKQPRC  PFQGIMYDYIRLEGPP
Sbjct:   637 IPGNRLVQGDNTIFLKQPRCNGPFQGIMYDYIRLEGPP 674
GO:0003824 "catalytic activity" evidence=IEA
GO:0005576 "extracellular region" evidence=ISM
GO:0005975 "carbohydrate metabolic process" evidence=IEA
GO:0016829 "lyase activity" evidence=ISS
GO:0030246 "carbohydrate binding" evidence=IEA
TAIR|locus:2024427 AT1G09890 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2136007 AT4G24430 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2024417 AT1G09880 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2121095 AT4G38030 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2066040 AT2G22620 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2121090 AT4G37950 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2200390 AT1G65210 "AT1G65210" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ASPGD|ASPL0000007043 rglB [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
UNIPROTKB|Q5AZ85 rglB "Rhamnogalacturonate lyase B" [Aspergillus nidulans FGSC A4 (taxid:227321)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.2.2LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query517
cd10317161 cd10317, RGL4_C, C-terminal domain of rhamnogalact 2e-54
cd10320265 cd10320, RGL4_N, N-terminal catalytic domain of rh 4e-54
pfam06045220 pfam06045, Rhamnogal_lyase, Rhamnogalacturonate ly 2e-38
cd1031692 cd10316, RGL4_M, Middle domain of rhamnogalacturon 4e-35
pfam1362081 pfam13620, CarboxypepD_reg, Carboxypeptidase regul 3e-04
>gnl|CDD|199905 cd10317, RGL4_C, C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase Back     alignment and domain information 
 Score =  180 bits (458), Expect = 2e-54
 Identities = 70/190 (36%), Positives = 84/190 (44%), Gaps = 31/190 (16%)

Query: 325 WEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSD 384
           W+IG PDR+A EF   D  P Y                       L P  DL YT+G SD
Sbjct: 1   WQIGTPDRTAAEFRNGDLLPNYHPS-----------------DWRLAPPGDLTYTVGSSD 43

Query: 385 YSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATL-AELQVRVND 443
              DW++AQ V            W I+F L  V       LR+A+A A+     QVRVND
Sbjct: 44  SDFDWYYAQSV---------NGPWTIRFDLTAVQATGGATLRIALAGASAGGRPQVRVND 94

Query: 444 PNANRPLFTTGLIGRD-NAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQ 502
              N PL  T   G D   I R    G Y LY  +IP +  + G NTI L     +S   
Sbjct: 95  ---NGPLLPTAPTGNDSRGIYRGAYRGNYHLYEFDIPASLLVAGTNTITLTVVSGSSLSP 151

Query: 503 GIMYDYIRLE 512
           G+MYD IRLE
Sbjct: 152 GVMYDAIRLE 161

The rhamnogalacturonan lyase of the polysaccharide lyase family 4 (RGL4) is involved in the degradation of RG (rhamnogalacturonan) type-I, an important pectic plant cell wall polysaccharide, by cleaving the alpha-1,4 glycoside bond between L-rhamnose and D-galacturonic acids in the backbone of RG type-I through a beta-elimination reaction. RGL4 consists of three domains, an N-terminal catalytic domain, a middle domain with a FNIII type fold and a C-terminal domain with a jelly roll fold. Both the middle and the C-terminal domain are putative carbohydrate binding modules. There are two types of RG lyases, which both cleave the alpha-1,4 bonds of the RG-I main chain (RG chain) through the beta-elimination reaction, but belong to two structurally unrelated polysaccharide lyase (PL) families, 4 and 11. Length = 161
>gnl|CDD|199907 cd10320, RGL4_N, N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase Back     alignment and domain information
>gnl|CDD|218870 pfam06045, Rhamnogal_lyase, Rhamnogalacturonate lyase family Back     alignment and domain information
>gnl|CDD|199904 cd10316, RGL4_M, Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase Back     alignment and domain information
>gnl|CDD|222268 pfam13620, CarboxypepD_reg, Carboxypeptidase regulatory-like domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 517
PF14683167 CBM-like: Polysaccharide lyase family 4, domain II 100.0
PF09284249 RhgB_N: Rhamnogalacturonase B, N-terminal; InterPr 100.0
PF06045203 Rhamnogal_lyase: Rhamnogalacturonate lyase family; 99.92
PF1468695 fn3_3: Polysaccharide lyase family 4, domain II; P 99.87
PF1362082 CarboxypepD_reg: Carboxypeptidase regulatory-like 98.88
PF1371588 DUF4480: Domain of unknown function (DUF4480) 98.54
cd03863375 M14_CPD_II The second carboxypeptidase (CP)-like d 98.08
cd03865402 M14_CPE_H Peptidase M14 Carboxypeptidase (CP) E (C 98.07
cd03864392 M14_CPN Peptidase M14 Carboxypeptidase N (CPN, als 98.05
cd06245363 M14_CPD_III The third carboxypeptidase (CP)-like d 97.87
cd03868372 M14_CPD_I The first carboxypeptidase (CP)-like dom 97.73
cd03858374 M14_CP_N-E_like Carboxypeptidase (CP) N/E-like sub 97.71
cd03867395 M14_CPZ Peptidase M14-like domain of carboxypeptid 97.44
cd03866376 M14_CPM Peptidase M14 Carboxypeptidase (CP) M (CPM 96.67
PF08400134 phage_tail_N: Prophage tail fibre N-terminal; Inte 95.75
PF0830871 PEGA: PEGA domain; InterPro: IPR013229 This domain 95.35
PRK15036137 hydroxyisourate hydrolase; Provisional 95.17
PF03422125 CBM_6: Carbohydrate binding module (family 6); Int 94.98
cd03869405 M14_CPX_like Peptidase M14-like domain of carboxyp 94.43
cd00421146 intradiol_dioxygenase Intradiol dioxygenases catal 94.27
PF0573870 Cna_B: Cna protein B-type domain; InterPro: IPR008 94.02
KOG1948 1165 consensus Metalloproteinase-related collagenase pM 94.02
PF09430123 DUF2012: Protein of unknown function (DUF2012); In 93.86
COG3485226 PcaH Protocatechuate 3,4-dioxygenase beta subunit 93.21
cd03463185 3,4-PCD_alpha Protocatechuate 3,4-dioxygenase (3,4 92.76
cd03459158 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) 92.08
PF0721085 DUF1416: Protein of unknown function (DUF1416); In 91.63
PF00775183 Dioxygenase_C: Dioxygenase; InterPro: IPR000627 Th 90.6
TIGR02465246 chlorocat_1_2 chlorocatechol 1,2-dioxygenase. Memb 90.4
PF03170 605 BcsB: Bacterial cellulose synthase subunit; InterP 90.35
KOG1948 1165 consensus Metalloproteinase-related collagenase pM 90.22
TIGR02423193 protocat_alph protocatechuate 3,4-dioxygenase, alp 90.17
PF0749566 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This regi 89.69
cd03464220 3,4-PCD_beta Protocatechuate 3,4-dioxygenase (3,4- 89.48
TIGR02422220 protocat_beta protocatechuate 3,4-dioxygenase, bet 89.35
cd03462247 1,2-CCD chlorocatechol 1,2-dioxygenases (1,2-CCDs) 89.24
cd03458256 Catechol_intradiol_dioxygenases Catechol intradiol 87.95
TIGR02438281 catachol_actin catechol 1,2-dioxygenase, Actinobac 86.82
cd03460282 1,2-CTD Catechol 1,2 dioxygenase (1,2-CTD) catalyz 84.98
smart00606129 CBD_IV Cellulose Binding Domain Type IV. 84.97
TIGR02439285 catechol_proteo catechol 1,2-dioxygenase, proteoba 84.7
PF02837167 Glyco_hydro_2_N: Glycosyl hydrolases family 2, sug 84.34
cd03461277 1,2-HQD Hydroxyquinol 1,2-dioxygenase (1,2-HQD) ca 84.3
PRK11114 756 cellulose synthase regulator protein; Provisional 84.14
TIGR02962112 hdxy_isourate hydroxyisourate hydrolase. Members o 80.65
>PF14683 CBM-like: Polysaccharide lyase family 4, domain III; PDB: 1NKG_A 2XHN_B 3NJX_A 3NJV_A Back     alignment and domain information 
Probab=100.00  E-value=4.2e-46  Score=350.72  Aligned_cols=165  Identities=52%  Similarity=0.885  Sum_probs=114.5

Q ss_pred             CCeEEEeccCCCccccccCCCCccccccccccCCchhhcccchhcccccCCCCCeeEEeeccCCCCCeeeEEEEEecCCc
Q 010135          322 PTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNK  401 (517)
Q Consensus       322 ~~LweIG~~Drt~~~F~~~d~~~~~~~~~~~~hp~~~R~~glW~~y~~~~P~~dl~ytVG~S~~~~Dw~y~~~~~~~~~~  401 (517)
                      ++|||||+|||++.||+++|+             +++|||| |++|+++||++|++|+||+| +++||||+|+++  .+ 
T Consensus         1 ~~iW~IG~~Drta~eF~~~~~-------------~~~r~~~-~~d~~~~~p~~~~~ytVG~S-~~~Dw~y~~~~~--~~-   62 (167)
T PF14683_consen    1 PTIWQIGTPDRTAAEFRNGDP-------------DKYRQYG-WSDYSRDFPWEDLTYTVGSS-PAKDWPYAQWGR--VN-   62 (167)
T ss_dssp             SEEEEEE-SSSS-TTSBTHH--------------HHTTS---TT--TTS----S-EEETTTS--GGGSBSEEETT--TS-
T ss_pred             CcceEeCCCCCCchhhccCCh-------------hhhhhcC-cccchhhCCCCCCEEEEccC-cccCCcEEEEec--cC-
Confidence            579999999999999998642             5699998 99999999998999999999 889999999974  44 


Q ss_pred             ccCCccEEEEEEeCCCCCCCcEEEEEEEecc-CCCeEEEEEcCCCCCCCcccccccCCCCceecceee-eeeEEEEEEee
Q 010135          402 TYQGTTWQIKFKLDHVDRNSSYKLRVAIASA-TLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIH-GLYLLYHVNIP  479 (517)
Q Consensus       402 ~~~~~~w~I~F~L~~~~~~~~~tLriala~a-~~~~~~V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~-G~~~~~~~~ip  479 (517)
                          ++|+|+|+|++++..+.+||||+||++ ++++++|+|||+..  +++ ...+++|++++|+++| |+|++++|+||
T Consensus        63 ----~~w~I~F~l~~~~~~~~~tL~i~la~a~~~~~~~V~vNg~~~--~~~-~~~~~~d~~~~r~g~~~G~~~~~~~~ip  135 (167)
T PF14683_consen   63 ----GTWTIKFDLDAVQLAGTYTLRIALAGASAGGRLQVSVNGWSG--PFP-SAPFGNDNAIYRSGIHRGNYRLYEFDIP  135 (167)
T ss_dssp             ------EEEEEEE-GGG-S--EEEEEEEEEEETT-EEEEEETTEE--------------S--GGGT---S---EEEEEE-
T ss_pred             ----CCEEEEEECCCCccCCcEEEEEEeccccCCCCEEEEEcCccC--Ccc-ccccCCCCceeeCceecccEEEEEEEEc
Confidence                899999999999877899999999999 79999999999544  333 2467899999999998 99999999999


Q ss_pred             CCCeeeeecEEEEEeecCCCCCceEEEEEEEE
Q 010135          480 GTRFIEGENTIFLKQPRCTSPFQGIMYDYIRL  511 (517)
Q Consensus       480 a~~L~~G~NtI~l~~~~g~s~~~~vmyD~I~L  511 (517)
                      +++|++|+|+|+|++++|++.+.|||||||||
T Consensus       136 a~~L~~G~Nti~lt~~~gs~~~~gvmyD~I~L  167 (167)
T PF14683_consen  136 ASLLKAGENTITLTVPSGSGLSPGVMYDYIRL  167 (167)
T ss_dssp             TTSS-SEEEEEEEEEE-S-GGSSEEEEEEEEE
T ss_pred             HHHEEeccEEEEEEEccCCCccCeEEEEEEEC
Confidence            99999999999999999987788999999998

>PF09284 RhgB_N: Rhamnogalacturonase B, N-terminal; InterPro: IPR015364 This domain is found in prokaryotic enzyme rhamnogalacturonase B, it adopts a structure consisting of a beta supersandwich, with eighteen strands in two beta-sheets Back     alignment and domain information
>PF06045 Rhamnogal_lyase: Rhamnogalacturonate lyase family; InterPro: IPR010325 Rhamnogalacturonate lyase degrades the rhamnogalacturonan I (RG-I) backbone of pectin [] Back     alignment and domain information
>PF14686 fn3_3: Polysaccharide lyase family 4, domain II; PDB: 1NKG_A 2XHN_B 3NJX_A 3NJV_A Back     alignment and domain information
>PF13620 CarboxypepD_reg: Carboxypeptidase regulatory-like domain; PDB: 3MN8_D 3P0D_I 3KCP_A 2B59_B 1UWY_A 1H8L_A 1QMU_A 2NSM_A Back     alignment and domain information
>PF13715 DUF4480: Domain of unknown function (DUF4480) Back     alignment and domain information
>cd03863 M14_CPD_II The second carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3 Back     alignment and domain information
>cd03865 M14_CPE_H Peptidase M14 Carboxypeptidase (CP) E (CPE, also known as carboxypeptidase H, and enkephalin convertase; EC 3 Back     alignment and domain information
>cd03864 M14_CPN Peptidase M14 Carboxypeptidase N (CPN, also known as kininase I, creatine kinase conversion factor, plasma carboxypeptidase B, arginine carboxypeptidase, and protaminase; EC 3 Back     alignment and domain information
>cd06245 M14_CPD_III The third carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3 Back     alignment and domain information
>cd03868 M14_CPD_I The first carboxypeptidase (CP)-like domain of Carboxypeptidase D (CPD; EC 3 Back     alignment and domain information
>cd03858 M14_CP_N-E_like Carboxypeptidase (CP) N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs) Back     alignment and domain information
>cd03867 M14_CPZ Peptidase M14-like domain of carboxypeptidase (CP) Z (CPZ), CPZ belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs) Back     alignment and domain information
>cd03866 M14_CPM Peptidase M14 Carboxypeptidase (CP) M (CPM) belongs to the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs) Back     alignment and domain information
>PF08400 phage_tail_N: Prophage tail fibre N-terminal; InterPro: IPR013609 This entry represents the N terminus of phage 933W tail fibre protein Back     alignment and domain information
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins Back     alignment and domain information
>PRK15036 hydroxyisourate hydrolase; Provisional Back     alignment and domain information
>PF03422 CBM_6: Carbohydrate binding module (family 6); InterPro: IPR005084 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity Back     alignment and domain information
>cd03869 M14_CPX_like Peptidase M14-like domain of carboxypeptidase (CP)-like protein X (CPX), CPX forms a distinct subgroup of the N/E subfamily of the M14 family of metallocarboxypeptidases (MCPs) Back     alignment and domain information
>cd00421 intradiol_dioxygenase Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates Back     alignment and domain information
>PF05738 Cna_B: Cna protein B-type domain; InterPro: IPR008454 This entry represents a repeated B region domain found in the collagen-binding surface protein Cna in Staphylococcus aureus, as well as other related domains Back     alignment and domain information
>KOG1948 consensus Metalloproteinase-related collagenase pM5 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF09430 DUF2012: Protein of unknown function (DUF2012); InterPro: IPR019008 This domain is found in different proteins, including uncharacterised protein family UPF0480 and nodal modulators Back     alignment and domain information
>COG3485 PcaH Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism] Back     alignment and domain information
>cd03463 3,4-PCD_alpha Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit Back     alignment and domain information
>cd03459 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate Back     alignment and domain information
>PF07210 DUF1416: Protein of unknown function (DUF1416); InterPro: IPR010814 This family consists of several hypothetical bacterial proteins of around 100 residues in length Back     alignment and domain information
>PF00775 Dioxygenase_C: Dioxygenase; InterPro: IPR000627 This entry represents the C-terminal domain common to several intradiol ring-cleavage dioxygenases Back     alignment and domain information
>TIGR02465 chlorocat_1_2 chlorocatechol 1,2-dioxygenase Back     alignment and domain information
>PF03170 BcsB: Bacterial cellulose synthase subunit; InterPro: IPR018513 An operon encoding 4 proteins required for bacterial cellulose biosynthesis (bcs) in Acetobacter xylinus (Gluconacetobacter xylinus) has been isolated via genetic complementation with strains lacking cellulose synthase activity [] Back     alignment and domain information
>KOG1948 consensus Metalloproteinase-related collagenase pM5 [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>TIGR02423 protocat_alph protocatechuate 3,4-dioxygenase, alpha subunit Back     alignment and domain information
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators Back     alignment and domain information
>cd03464 3,4-PCD_beta Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit Back     alignment and domain information
>TIGR02422 protocat_beta protocatechuate 3,4-dioxygenase, beta subunit Back     alignment and domain information
>cd03462 1,2-CCD chlorocatechol 1,2-dioxygenases (1,2-CCDs) (type II enzymes) are homodimeric intradiol dioxygenases that degrade chlorocatechols via the addition of molecular oxygen and the subsequent cleavage between two adjacent hydroxyl groups Back     alignment and domain information
>cd03458 Catechol_intradiol_dioxygenases Catechol intradiol dioxygenases can be divided into several subgroups according to their substrate specificity for catechol, chlorocatechols and hydroxyquinols Back     alignment and domain information
>TIGR02438 catachol_actin catechol 1,2-dioxygenase, Actinobacterial Back     alignment and domain information
>cd03460 1,2-CTD Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate Back     alignment and domain information
>smart00606 CBD_IV Cellulose Binding Domain Type IV Back     alignment and domain information
>TIGR02439 catechol_proteo catechol 1,2-dioxygenase, proteobacterial Back     alignment and domain information
>PF02837 Glyco_hydro_2_N: Glycosyl hydrolases family 2, sugar binding domain; InterPro: IPR006104 O-Glycosyl hydrolases 3 Back     alignment and domain information
>cd03461 1,2-HQD Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form 3-hydroxy-cis,cis-muconates Back     alignment and domain information
>PRK11114 cellulose synthase regulator protein; Provisional Back     alignment and domain information
>TIGR02962 hdxy_isourate hydroxyisourate hydrolase Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query517
1nkg_A508 Rhamnogalacturonase B; polysaccharide lyase, carbo 1e-122
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-07
>1nkg_A Rhamnogalacturonase B; polysaccharide lyase, carbohydrate active enzyme, pectin, LY; 1.50A {Aspergillus aculeatus} SCOP: b.3.1.2 b.18.1.25 b.30.5.10 PDB: 2xhn_A* 3njv_A* 3njx_A Length = 508 Back     alignment and structure
 Score =  368 bits (945), Expect = e-122
 Identities = 84/517 (16%), Positives = 153/517 (29%), Gaps = 98/517 (18%)

Query: 1   MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLST 60
           +  G    +              ++G+ RF  +L  +         N      +      
Sbjct: 84  VHNGDPIIHMATYITAE-----PSIGELRFIARLNSDLL------PNEEPFGDVS----- 127

Query: 61  GRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSD 120
                 A   A++  +        E   K+  S    D + H            +I+   
Sbjct: 128 ----TTADGTAIEGSDVFLVG--SETRSKFYSSERFIDDQRHCIA--GDAHRVCMILNQY 179

Query: 121 EFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAAD 180
           E  SGGP  +++ S+ G +  A++   +        H+  +     + GP  +Y +    
Sbjct: 180 ESSSGGPFHRDINSNNGGSYNALYWYMNSG------HVQTESYRMGLHGPYSMYFS---R 230

Query: 181 GDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAY 240
              P    + +            +     + +  +  RG V+G                 
Sbjct: 231 SGTPSTSIDTSF-----------FADLDIKGYVAASGRGKVAGT---------------- 263

Query: 241 VGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALV 300
              A               Q+WT     G F+   ++ G Y +  +   +     S   V
Sbjct: 264 ASGADSSMDWVVHWYNDAAQYWTYTSSSGSFTSPAMKPGTYTMVYYQGEYAVATSS---V 320

Query: 301 TITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQ 360
           T+++GS       +    + G T+++IG  D     F       +        HP   R 
Sbjct: 321 TVSAGSTTTKN--ISGSVKTGTTIFKIGEWDGQPTGF-------RNAANQLRMHPSDSR- 370

Query: 361 YGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRN 420
                    +     L YT+G S  + D+  A                 IKF        
Sbjct: 371 ---------MSSWGPLTYTVGSSALT-DFPMAVF-------KSVNNPVTIKFTATSAQ-T 412

Query: 421 SSYKLRVAIASA-TLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIP 479
            +  LR+    +      Q  +N    + P   T L      + R    GL  +Y V+IP
Sbjct: 413 GAATLRIGTTLSFAGGRPQATINSYTGSAPAAPTNLD--SRGVTRGAYRGLGEVYDVSIP 470

Query: 480 GTRFIEGENTIFLKQPRCTSPF----QGIMYDYIRLE 512
               + G NTI +     +S         ++D + L 
Sbjct: 471 SGTIVAGTNTITINVISGSSGDTYLSPNFIFDCVELF 507
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query517
1nkg_A508 Rhamnogalacturonase B; polysaccharide lyase, carbo 100.0
2nsm_A439 Carboxypeptidase N catalytic chain; caroxypeptidas 98.04
1h8l_A380 Carboxypeptidase GP180 residues 503-882; hydrolase 97.95
3mn8_A435 LP15968P; catalytic domain of alpha/beta-hydrolase 97.88
1uwy_A426 Carboxypeptidase M; metallopeptidase, GPI-anchor, 97.84
1xpn_A170 Hypothetical protein PA1324; B-barrel, structural 97.06
3qec_A150 Putative carbohydrate binding protein; suramin bin 96.86
4aw7_A591 GH86A beta-porphyranase; hydrolase, porphyran-hexa 96.57
2w87_A139 Esterase D, XYL-CBM35; plant cell WALL degradation 96.44
2wz8_A156 Cellulosome protein dockerin type I; sugar binding 96.38
2w3j_A145 Carbohydrate binding module; sugar-binding protein 96.02
2w47_A144 Lipolytic enzyme, G-D-S-L; hydrolase; HET: UNF; 1. 95.75
2vzp_A127 Aocbm35, EXO-beta-D-glucosaminidase; family 35, CS 94.54
2bgo_A140 Endo-B1,4-mannanase 5C; carbohydrate binding prote 94.48
3kcp_A321 Cellulosomal-scaffolding protein A; dockerin, X-mo 94.01
2xsu_A312 Catechol 1,2 dioxygenase; oxidoreductase; HET: PIE 92.09
2bum_B241 Protocatechuate 3,4-dioxygenase beta chain; oxidor 91.27
2boy_A254 3-chlorocatechol 1,2-dioxygenase; beta barrel, oxi 90.97
2azq_A311 Catechol 1,2-dioxygenase; CTD, lipid, isozyme, int 90.74
1uxz_A131 Cellulase B; carbohydrate binding module, CBM6, mi 90.21
2bum_A209 Protocatechuate 3,4-dioxygenase alpha chain; oxido 89.78
3t63_M238 3,4-PCD, protocatechuate 3,4-dioxygenase beta chai 89.55
3th1_A260 Chlorocatechol 1,2-dioxygenase; catechol 1,2-dioxy 89.4
1tmx_A293 Hydroxyquinol 1,2-dioxygenase; beta barrel, oxidor 87.58
2y8k_A491 Arabinoxylanase, carbohydrate binding family 6; hy 87.55
3n9t_A290 PNPC; phospholipid binds, N-terminal helix tunnel, 87.09
1dmh_A311 1,2-CTD, catechol 1,2-dioxygenase; aromatic hydroc 86.62
3o5u_A257 Chlorocatechol 1,2-dioxygenase; beta barrel,oxidor 86.34
3t63_A200 3,4-PCD, protocatechuate 3,4-dioxygenase alpha cha 86.25
3hhy_A280 1,2-CTD, catechol 1,2-dioxygenase; beta-sandwich, 85.56
2cdp_A160 Beta-agarase 1; carbohydrate-binding module, hydro 85.16
1w9s_A142 BH0236 protein, BHCBM6; carbohydrate-binding modul 82.69
1ti6_B274 Pyrogallol hydroxytransferase small subunit; molyb 81.25
>1nkg_A Rhamnogalacturonase B; polysaccharide lyase, carbohydrate active enzyme, pectin, LY; 1.50A {Aspergillus aculeatus} SCOP: b.3.1.2 b.18.1.25 b.30.5.10 PDB: 2xhn_A* 3njv_A* 3njx_A Back     alignment and structure
Probab=100.00  E-value=6.3e-113  Score=920.04  Aligned_cols=413  Identities=21%  Similarity=0.283  Sum_probs=370.5

Q ss_pred             CCCCCceeEEEEEeeccccCCCCCCCceEEEEecCccCccceeeeccccccCCCCcCCCCCCCccccccceEEeeCCCCC
Q 010135            1 MLRGSSGFYSYAIYEHLKEWPAFTLGQTRFTFKLRKEKFRYMVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDP   80 (517)
Q Consensus         1 ~~~g~~g~Y~y~i~~~~~~~p~~~lge~R~v~Rl~~~~f~~~~~~d~r~~~~P~~~d~~~~~~~~~~~~e~v~~~~~~~~   80 (517)
                      ||+|++|||||+++++     +++|+|+|+||||++++|++.      ++.||+|+++   .+++ +++|++...     
T Consensus        84 ~~~g~sg~Y~y~~~~~-----~~~lge~R~v~Rl~~~~f~~~------~r~~~~p~~~---~~~~-v~~~d~~~l-----  143 (508)
T 1nkg_A           84 VHNGDPIIHMATYITA-----EPSIGELRFIARLNSDLLPNE------EPFGDVSTTA---DGTA-IEGSDVFLV-----  143 (508)
T ss_dssp             EETTCCEEEEEEEESS-----CCTTSCEEEEEEECTTTCCEE------ETTGGGGCCT---TCEE-EETTTEEEE-----
T ss_pred             EeCCCceEEEEEeecc-----CCCCCceEEEEEcChhhCCCc------cccCCCCccc---cCcE-eeeccceee-----
Confidence            6899999999998864     679999999999999999762      5888999775   4555 667877555     


Q ss_pred             CCCCeeeeeeeecccccCCcEEEEEeCCCCeEEEEEcCCCccccCCCceeccccccCC---cEEEEEeecccccccceee
Q 010135           81 EHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGP---TTLAVFLSGHYAGKYMETH  157 (517)
Q Consensus        81 ~~~G~~~sKY~~s~~~~d~~vhG~~s~g~~vG~W~I~~s~E~~sGGP~kqdL~~h~g~---~~l~y~~s~H~~g~~~~~~  157 (517)
                        +|+++||||||+++||++||||+  ++.||||||+|++||++||||||||++|+++   ++|+||+|+|++    +++
T Consensus       144 --~G~~~~KY~~s~~~~D~~vhG~~--~~~vG~w~I~~s~E~~sGGP~kqdL~~h~~~~~~~~~~y~~s~H~~----t~~  215 (508)
T 1nkg_A          144 --GSETRSKFYSSERFIDDQRHCIA--GDAHRVCMILNQYESSSGGPFHRDINSNNGGSYNALYWYMNSGHVQ----TES  215 (508)
T ss_dssp             --TTEEEEGGGGCCBGGGCSEEEEE--CSSCEEEEECCCCTTCSSCTTCBCCCEEECSSCEEEEEEEECSTTC----CSC
T ss_pred             --CCEEccceeccccceecceEEEE--CCCeEEEEEcCCcccccCCCcchhhhccCCcccceeeeeEeecccc----ccc
Confidence              49999999999999999999999  5999999999999999999999999999999   899999999975    566


Q ss_pred             cCCCCCCceeeceEEEEEcCCCCCCCchhhHHHHHHHHhhhccCCCCCCCCC---CCCCCCCCCeEEEEEEEEecCCCcc
Q 010135          158 IGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPAS---EDFQKSEERGCVSGRLLVQDSNDVI  234 (517)
Q Consensus       158 ~~~Ge~w~k~~GP~~~y~n~g~~~~~~~~l~~Da~~~~~~E~~~wpy~f~~s---~~y~~~~~RG~VsG~v~~~d~~~~~  234 (517)
                      ++.     |||||||||||+|++++                 ++|||+|++|   ++||++++||+|+|+|+   +   .
T Consensus       216 ~~~-----g~~GP~~~y~n~g~~~~-----------------~~wpysf~~s~~~~~y~~~~~RGtVsG~V~---G---~  267 (508)
T 1nkg_A          216 YRM-----GLHGPYSMYFSRSGTPS-----------------TSIDTSFFADLDIKGYVAASGRGKVAGTAS---G---A  267 (508)
T ss_dssp             CCC-----EEEEEEEEEEESSCCCC-----------------SCCCCGGGGGTTCTTCCCGGGCBEEEEEEE---S---S
T ss_pred             ccc-----cccccEEEEECCCCCCC-----------------CCCCCccccccCccCCcCcccccEEEEEEc---C---c
Confidence            675     59999999999999863                 5999999999   99999999999999988   3   3


Q ss_pred             -ccCceEEEecCCCCCCCccccccccceEEEeCCCcceEeCcccCcceEEEEEECceeeeeeeeeEEEEeCCceeeecce
Q 010135          235 -SANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDL  313 (517)
Q Consensus       235 -pa~~a~V~L~~~~~~g~~~~~~~~yqywt~td~~G~Fti~nVrpGtY~L~a~~~G~~G~~~~~~~VtV~aG~t~~l~~l  313 (517)
                       ++..++|+|.           +++|||||+||++|+|+|++||||+|+|+||++|+   ...+.+|+|+||++++++ |
T Consensus       268 ~~~~~avv~~~-----------~k~~qywt~td~~G~FtI~~V~pGtY~L~a~~~G~---~~~~~~VtV~aG~t~~l~-i  332 (508)
T 1nkg_A          268 DSSMDWVVHWY-----------NDAAQYWTYTSSSGSFTSPAMKPGTYTMVYYQGEY---AVATSSVTVSAGSTTTKN-I  332 (508)
T ss_dssp             CTTSCEEEEEE-----------CSSCEEEEECCTTCEEECCCBCSEEEEEEEEETTE---EEEEEEEEECTTCEEECC-E
T ss_pred             cCCceEEEEEc-----------CCCceeEEEECCCCcEEeCCcCCceEEEEEEECce---EEEEeEEEEcCCCeeEee-e
Confidence             4444566663           58999999999999999999999999999999987   356678999999999996 9


Q ss_pred             EEcCCCCCCCeEEEeccCCCccccccCCCCccccccccccCCchhhcccchhcccccCCCCCeeEEeeccCCCCCeeeEE
Q 010135          314 VYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQ  393 (517)
Q Consensus       314 ~~~~~~~~~~LweIG~~Drt~~~F~~~d~~~~~~~~~~~~hp~~~R~~glW~~y~~~~P~~dl~ytVG~S~~~~Dw~y~~  393 (517)
                      +|+++ ++++|||||+|||+|.||+++|+       +.+|||+|+||| +|+         ||+||||+|++ +||||||
T Consensus       333 ~~~~~-~g~~iW~IG~pDrta~eF~~~d~-------~~~~hp~~~r~~-~W~---------~l~ytVG~S~~-~Dw~ya~  393 (508)
T 1nkg_A          333 SGSVK-TGTTIFKIGEWDGQPTGFRNAAN-------QLRMHPSDSRMS-SWG---------PLTYTVGSSAL-TDFPMAV  393 (508)
T ss_dssp             ECCCC-CCSEEEEEECSSSSCTTSBTHHH-------HTTSCTTCTTSC-CCC---------SCEEETTTSCG-GGSBSEE
T ss_pred             EEecC-CCCeeEEeeCCCCCchhhcCCCc-------ccccCcchhccc-ccC---------CeEEEeCcCch-hcCCeEE
Confidence            99876 79999999999999999999873       335799999999 994         79999999999 7999999


Q ss_pred             EEEecCCcccCCccEEEEEEeCCCCCCCcEEEEEEEeccC-CCeEEEEEcCCCCCCCcccccccCCCCceecceeeeeeE
Q 010135          394 VVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASAT-LAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYL  472 (517)
Q Consensus       394 ~~~~~~~~~~~~~~w~I~F~L~~~~~~~~~tLriala~a~-~~~~~V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~G~~~  472 (517)
                      |+  .++     ++|+|+|+|+++| .+++||||+||+|. +++++|+|||+..  ++|.++.+++||||+||++||+|+
T Consensus       394 ~~--~~~-----~~w~I~F~l~~~~-~~~~tLri~la~a~a~~~~qV~VN~~~~--~~~~~~~~~~~~~i~R~~~~G~~~  463 (508)
T 1nkg_A          394 FK--SVN-----NPVTIKFTATSAQ-TGAATLRIGTTLSFAGGRPQATINSYTG--SAPAAPTNLDSRGVTRGAYRGLGE  463 (508)
T ss_dssp             ET--TTT-----CCEEEEEEECGGG-CSCEEEEEEEEEEETTCEEEEEETTEEC--CCCCCCCCCCSCCGGGTCCCSCCC
T ss_pred             EC--CCC-----CcEEEEEEcCccc-CCceEEEEEehhhccCCCeEEEECCcCC--cCccccccCCCCeEEecceeeeeE
Confidence            94  355     8999999999987 78999999999985 8999999999754  577889999999999999999999


Q ss_pred             EEEEEeeCCCeeeeecEEEEEeecCCC--CCc--eEEEEEEEEec
Q 010135          473 LYHVNIPGTRFIEGENTIFLKQPRCTS--PFQ--GIMYDYIRLEG  513 (517)
Q Consensus       473 ~~~~~ipa~~L~~G~NtI~l~~~~g~s--~~~--~vmyD~I~Le~  513 (517)
                      +++|+||+++|++|+|+|+|+++++++  +||  +|||||||||.
T Consensus       464 ~~~~~ipa~~L~~G~NtI~lt~~~~s~~~~fls~~vmyD~I~L~~  508 (508)
T 1nkg_A          464 VYDVSIPSGTIVAGTNTITINVISGSSGDTYLSPNFIFDCVELFQ  508 (508)
T ss_dssp             EEEEEECTTSSCSEEEEEEEEEECSCCCSGGGSSEEEEEEEEEEC
T ss_pred             EEEEEEcHHHeecCceEEEEEeccCCCCCccccccEEEEEEEecC
Confidence            999999999999999999999999986  588  99999999984
>2nsm_A Carboxypeptidase N catalytic chain; caroxypeptidase, zinc peptidase, transthyretin-like domain, processing, peptide modification, hydrolase; HET: NAG; 2.10A {Homo sapiens} Back     alignment and structure
>1h8l_A Carboxypeptidase GP180 residues 503-882; hydrolase, zinc-dependent protease; HET: NAG BMA NDG GEM; 2.6A {Lophonetta specularioides} SCOP: b.3.2.1 c.56.5.1 PDB: 1qmu_A* Back     alignment and structure
>3mn8_A LP15968P; catalytic domain of alpha/beta-hydrolase fold, C-terminal, A transthyretin-like domain, hydrolase; HET: NAG GEM; 2.70A {Drosophila melanogaster} Back     alignment and structure
>1uwy_A Carboxypeptidase M; metallopeptidase, GPI-anchor, metalloprotease, zinc, lipoprotein, hydrolase, structural proteomics in europe, spine; HET: NAG; 3.0A {Homo sapiens} SCOP: b.3.2.1 c.56.5.1 Back     alignment and structure
>1xpn_A Hypothetical protein PA1324; B-barrel, structural genomics, northeast structural genomics consortium, NESG, protein structure initiative; NMR {Pseudomonas aeruginosa} SCOP: b.3.7.1 Back     alignment and structure
>3qec_A Putative carbohydrate binding protein; suramin binding, heparin binding, possible carbohydrate TRAN biofilm formation; HET: PGE; 2.61A {Pseudomonas aeruginosa} Back     alignment and structure
>4aw7_A GH86A beta-porphyranase; hydrolase, porphyran-hexa-oligosaccharide, complex; HET: GLA GAL L6S AAL; 1.33A {Bacteroides plebeius} Back     alignment and structure
>2w87_A Esterase D, XYL-CBM35; plant cell WALL degradation, carbohydrate protein binding, xylan, CMB35, glucuronic acid, hydrolase; HET: GCU; 1.60A {Cellvibrio japonicus} PDB: 2w46_A Back     alignment and structure
>2wz8_A Cellulosome protein dockerin type I; sugar binding protein; 1.50A {Clostridium thermocellum} Back     alignment and structure
>2w3j_A Carbohydrate binding module; sugar-binding protein, family 35, uronic acid sugars; 1.70A {Uncultured bacterium} Back     alignment and structure
>2w47_A Lipolytic enzyme, G-D-S-L; hydrolase; HET: UNF; 1.40A {Clostridium thermocellum} PDB: 2w1w_A Back     alignment and structure
>2vzp_A Aocbm35, EXO-beta-D-glucosaminidase; family 35, CSXA, glucuronic acid, hydrolase; 1.05A {Amycolatopsis orientalis} PDB: 2vzq_A* 2vzr_A* Back     alignment and structure
>3kcp_A Cellulosomal-scaffolding protein A; dockerin, X-module, carbohydrate metabolism, cell WALL biogenesis/degradation; 1.94A {Clostridium thermocellum atcc 27405} PDB: 3p0d_C 4fl4_C 2b59_B Back     alignment and structure
>2xsu_A Catechol 1,2 dioxygenase; oxidoreductase; HET: PIE; 1.60A {Acinetobacter radioresistens} PDB: 2xsr_A* 2xsv_A* Back     alignment and structure
>2bum_B Protocatechuate 3,4-dioxygenase beta chain; oxidoreductase, aromatic degradation, non-heme iron, beta-SA mixed alpha/beta structure; 1.80A {Acinetobacter SP} SCOP: b.3.6.1 PDB: 1eo2_B 1eoa_B 1eob_B* 1eoc_B* 1eo9_B 2buq_B 2bur_B* 2bux_B 2buy_B 2buz_B* 2bv0_B* 2buu_B* 2but_B* 2buv_B* 2buw_B* Back     alignment and structure
>2boy_A 3-chlorocatechol 1,2-dioxygenase; beta barrel, oxidoreductase; HET: BHO LPP; 1.9A {Rhodococcus opacus} Back     alignment and structure
>2azq_A Catechol 1,2-dioxygenase; CTD, lipid, isozyme, intradiol, oxido; HET: PCF; 2.65A {Pseudomonas putida} Back     alignment and structure
>1uxz_A Cellulase B; carbohydrate binding module, CBM6, mixted BETA1, 3-1, 4 linked glucan; 1.4A {Cellvibrio mixtus} SCOP: b.18.1.10 PDB: 1uy0_A* 1uyx_A* 1uyy_A* 1uyz_A* 1uz0_A* Back     alignment and structure
>2bum_A Protocatechuate 3,4-dioxygenase alpha chain; oxidoreductase, aromatic degradation, non-heme iron, beta-SA mixed alpha/beta structure; 1.80A {Acinetobacter SP} SCOP: b.3.6.1 PDB: 1eo2_A 1eob_A* 1eoc_A* 1eoa_A 2buq_A 2bur_A* 2but_A 2buu_A* 2buv_A* 2buw_A* 1eo9_A 2bux_A 2buy_A 2buz_A* 2bv0_A* Back     alignment and structure
>3t63_M 3,4-PCD, protocatechuate 3,4-dioxygenase beta chain; iron III dependent non-heme intradiol dioxygenase, oxidoredu; HET: GOL; 1.54A {Pseudomonas putida} PDB: 3mi1_M* 3mv4_M* 3mi5_M* 3mfl_M* 3mv6_M* 3t67_M 3pca_M* 3pcb_M* 2pcd_M* 3pce_M* 3pcf_M* 3pcc_M* 3pch_M* 3pci_M* 3pcj_M* 3pck_M* 3pcl_M* 3pcm_M* 3pcn_M* 3pcg_M ... Back     alignment and structure
>3th1_A Chlorocatechol 1,2-dioxygenase; catechol 1,2-dioxygenase family, oxidoreductase, iron bindin; HET: 3PH GOL; 3.40A {Pseudomonas putida} Back     alignment and structure
>1tmx_A Hydroxyquinol 1,2-dioxygenase; beta barrel, oxidoreductase; HET: HGX; 1.75A {Pimelobacter simplex} Back     alignment and structure
>2y8k_A Arabinoxylanase, carbohydrate binding family 6; hydrolase; 1.47A {Clostridium thermocellum} Back     alignment and structure
>3n9t_A PNPC; phospholipid binds, N-terminal helix tunnel, oxidoreductase; HET: HGX FLC; 2.00A {Pseudomonas putida} Back     alignment and structure
>1dmh_A 1,2-CTD, catechol 1,2-dioxygenase; aromatic hydrocarbon degradation, alpha/beta FO metalloenzyme, substrate, oxidoreductase; HET: LIO; 1.70A {Acinetobacter SP} SCOP: b.3.6.1 PDB: 1dlq_A* 1dlm_A* 1dlt_A* Back     alignment and structure
>3o5u_A Chlorocatechol 1,2-dioxygenase; beta barrel,oxidoreductase, oxidoreductase; HET: MYY DHB; 2.35A {Rhodococcus opacus} PDB: 3o32_A* 1s9a_A* 3o6j_A* 3o6r_A* Back     alignment and structure
>3t63_A 3,4-PCD, protocatechuate 3,4-dioxygenase alpha chain; iron III dependent non-heme intradiol dioxygenase, oxidoredu; HET: GOL; 1.54A {Pseudomonas putida} PDB: 1ykl_A* 1ykm_A* 1ykn_A* 1yko_A* 1ykp_A* 2pcd_A 1ykk_A* 3lmx_A* 3lxv_A* 3mfl_A* 3mi1_A* 3mi5_A* 3lkt_A* 3mv6_A* 3pca_A* 3pcb_A* 3pcc_A* 3pcd_A 3pce_A* 3pcf_A* ... Back     alignment and structure
>3hhy_A 1,2-CTD, catechol 1,2-dioxygenase; beta-sandwich, aromatic hydrocarbons catabolism, dioxygenase metal-binding, oxidoreductase; HET: 6PL; 1.55A {Rhodococcus opacus} PDB: 3hhx_A* 3hgi_A* 3hj8_A* 3hjq_A* 3hjs_A* 3i4v_A* 3hkp_A* 3i51_A* 3i4y_A* Back     alignment and structure
>2cdp_A Beta-agarase 1; carbohydrate-binding module, hydrolase; HET: GAL AAL; 1.59A {Saccharophagus degradans} PDB: 2cdo_A* Back     alignment and structure
>1w9s_A BH0236 protein, BHCBM6; carbohydrate-binding module, lectin, beta-glucan, carbohydrate binding, glycoside hydrolase; 1.59A {Bacillus halodurans} SCOP: b.18.1.10 PDB: 1w9t_A* 1w9w_A* Back     alignment and structure
>1ti6_B Pyrogallol hydroxytransferase small subunit; molybdenum binding enzyme, MGD-cofactors, DMSO-reductase family, 4Fe-4S-cluster; HET: MGD BTT; 2.00A {Pelobacter acidigallici} SCOP: b.3.5.1 d.58.1.5 PDB: 1ti2_B* 1ti4_B* 1vld_N* 1vle_N* 1vlf_N* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 517
d1nkga2171 b.18.1.25 (A:338-508) Rhamnogalacturonase B, RhgB, 1e-56
d1nkga187 b.3.1.2 (A:251-337) Rhamnogalacturonase B, RhgB, m 2e-04
d1nkga3250 b.30.5.10 (A:1-250) Rhamnogalacturonase B, RhgB, N 0.002
>d1nkga2 b.18.1.25 (A:338-508) Rhamnogalacturonase B, RhgB, C-terminal domain {Aspergillus aculeatus [TaxId: 5053]} Length = 171 Back     information, alignment and structure

class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: Rhamnogalacturonase B, RhgB, C-terminal domain
domain: Rhamnogalacturonase B, RhgB, C-terminal domain
species: Aspergillus aculeatus [TaxId: 5053]

 Score =  184 bits (469), Expect = 1e-56
 Identities = 39/196 (19%), Positives = 60/196 (30%), Gaps = 33/196 (16%)

Query: 321 GPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTI 380
           G T+++IG  D     F       +        HP   R                L YT+
Sbjct: 2   GTTIFKIGEWDGQPTGF-------RNAANQLRMHPSDSRMSSW----------GPLTYTV 44

Query: 381 GVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATL-AELQV 439
           G S  + D+  A                 IKF         +  LR+    +      Q 
Sbjct: 45  GSSALT-DFPMAVF-------KSVNNPVTIKFTATSAQT-GAATLRIGTTLSFAGGRPQA 95

Query: 440 RVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTS 499
            +N    + P   T        + R    GL  +Y V+IP    + G NTI +     +S
Sbjct: 96  TINSYTGSAPAAPT--NLDSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGSS 153

Query: 500 PFQ----GIMYDYIRL 511
                    ++D + L
Sbjct: 154 GDTYLSPNFIFDCVEL 169
>d1nkga1 b.3.1.2 (A:251-337) Rhamnogalacturonase B, RhgB, middle domain {Aspergillus aculeatus [TaxId: 5053]} Length = 87 Back     information, alignment and structure
>d1nkga3 b.30.5.10 (A:1-250) Rhamnogalacturonase B, RhgB, N-terminal domain {Aspergillus aculeatus [TaxId: 5053]} Length = 250 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query517
d1nkga2171 Rhamnogalacturonase B, RhgB, C-terminal domain {As 100.0
d1nkga3250 Rhamnogalacturonase B, RhgB, N-terminal domain {As 100.0
d1nkga187 Rhamnogalacturonase B, RhgB, middle domain {Asperg 99.53
d1h8la179 Carboxypeptidase D C-terminal domain {Crested duck 98.64
d1vlfn179 Transhydroxylase beta subunit, BthL, C-terminal do 98.44
d1uwya1107 Carboxypeptidase M C-terminal domain {Human (Homo 97.94
d1xpna_170 Hypothetical protein PA1324 {Pseudomonas aeruginos 95.95
d2b59b296 Cellulosomal scaffolding protein A {Clostridium th 94.38
d2burb1238 Protocatechuate-3,4-dioxygenase, beta chain {Acine 94.36
d3pccm_236 Protocatechuate-3,4-dioxygenase, beta chain {Pseud 93.52
d1w9sa_134 Hypothetical protein BH0236 {Bacillus halodurans [ 93.28
d3pcca_200 Protocatechuate-3,4-dioxygenase, alpha chain {Pseu 93.12
d2bura1202 Protocatechuate-3,4-dioxygenase, alpha chain {Acin 92.47
d1dmha_309 Catechol 1,2-dioxygenase {Acinetobacter calcoaceti 92.18
d1s9aa_256 Chlorocatechol 1,2-dioxygenase {Rhodococcus opacus 91.56
d1od3a_132 Putative xylanase {Clostridium stercorarium [TaxId 91.2
d1uxxx_125 Carbohydrate binding module from xylanase U {Clost 90.2
d1cwva194 Invasin {Yersinia pseudotuberculosis [TaxId: 633]} 86.98
d1uxza_131 Cellulase B (lichenase 5a) {Cellvibrio mixtus [Tax 86.87
d1uy4a_132 Putative xylanase {Clostridium stercorarium [TaxId 85.76
d1jz8a3207 beta-Galactosidase {Escherichia coli [TaxId: 562]} 84.24
>d1nkga2 b.18.1.25 (A:338-508) Rhamnogalacturonase B, RhgB, C-terminal domain {Aspergillus aculeatus [TaxId: 5053]} Back     information, alignment and structure
class: All beta proteins
fold: Galactose-binding domain-like
superfamily: Galactose-binding domain-like
family: Rhamnogalacturonase B, RhgB, C-terminal domain
domain: Rhamnogalacturonase B, RhgB, C-terminal domain
species: Aspergillus aculeatus [TaxId: 5053]

Probab=100.00  E-value=1.5e-48  Score=363.52  Aligned_cols=164  Identities=24%  Similarity=0.337  Sum_probs=150.2

Q ss_pred             CCCeEEEeccCCCccccccCCCCccccccccccCCchhhcccchhcccccCCCCCeeEEeeccCCCCCeeeEEEEEecCC
Q 010135          321 GPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDN  400 (517)
Q Consensus       321 ~~~LweIG~~Drt~~~F~~~d~~~~~~~~~~~~hp~~~R~~glW~~y~~~~P~~dl~ytVG~S~~~~Dw~y~~~~~~~~~  400 (517)
                      |++|||||+|||++.||+++|       ++++|||+|+||| -|+         +++||||+|++ +||||+||+.  .+
T Consensus         2 G~tiW~IG~pDrsa~eF~~~~-------~~~~~hp~~~R~~-~w~---------~l~ytVG~Sd~-~Dw~~a~~~~--~~   61 (171)
T d1nkga2           2 GTTIFKIGEWDGQPTGFRNAA-------NQLRMHPSDSRMS-SWG---------PLTYTVGSSAL-TDFPMAVFKS--VN   61 (171)
T ss_dssp             CSEEEEEECSSSSCTTSBTHH-------HHTTSCTTCTTSC-CCC---------SCEEETTTSCG-GGSBSEEETT--TT
T ss_pred             CCeEEEccCCCCCchhhcCcc-------cchhcCccchhcc-CCC---------CcEEEeCCCCc-ccccEEEEcC--CC
Confidence            789999999999999999964       7899999999999 584         69999999998 5999999963  45


Q ss_pred             cccCCccEEEEEEeCCCCCCCcEEEEEEEeccC-CCeEEEEEcCCCCCCCcccccccCCCCceecceeeeeeEEEEEEee
Q 010135          401 KTYQGTTWQIKFKLDHVDRNSSYKLRVAIASAT-LAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIP  479 (517)
Q Consensus       401 ~~~~~~~w~I~F~L~~~~~~~~~tLriala~a~-~~~~~V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~G~~~~~~~~ip  479 (517)
                           ++|+|+|+|+++| .++|||||+||+|. ++++||+|||+..  ++|.++.++++|||+||++||++++++|+||
T Consensus        62 -----~~w~I~F~L~~~~-~~~~tLrI~la~a~a~~~~qV~vN~~~~--~~~~~~~~~~~~~i~R~~~~g~~~~~~~~iP  133 (171)
T d1nkga2          62 -----NPVTIKFTATSAQ-TGAATLRIGTTLSFAGGRPQATINSYTG--SAPAAPTNLDSRGVTRGAYRGLGEVYDVSIP  133 (171)
T ss_dssp             -----CCEEEEEEECGGG-CSCEEEEEEEEEEETTCEEEEEETTEEC--CCCCCCCCCCSCCGGGTCCCSCCCEEEEEEC
T ss_pred             -----CCEEEEEEcCccc-CCceEEEEehhcccCCCCeEEEECCcCC--CCccCCccCCCCceeccccccceEEEEEEec
Confidence                 7999999999876 58999999999984 7899999999765  6788899999999999999999999999999


Q ss_pred             CCCeeeeecEEEEEeecCCCC--Cc--eEEEEEEEEe
Q 010135          480 GTRFIEGENTIFLKQPRCTSP--FQ--GIMYDYIRLE  512 (517)
Q Consensus       480 a~~L~~G~NtI~l~~~~g~s~--~~--~vmyD~I~Le  512 (517)
                      +++|++|+|+|+|++++|+++  |+  +||||||||.
T Consensus       134 a~~L~~G~Nti~lt~~~gs~~~~~L~p~~~yD~i~L~  170 (171)
T d1nkga2         134 SGTIVAGTNTITINVISGSSGDTYLSPNFIFDCVELF  170 (171)
T ss_dssp             TTSSCSEEEEEEEEEECSCCCSGGGSSEEEEEEEEEE
T ss_pred             hHHeEecceEEEEEecCCCCCccccCCceeeEEhhhh
Confidence            999999999999999999876  66  9999999996
>d1nkga3 b.30.5.10 (A:1-250) Rhamnogalacturonase B, RhgB, N-terminal domain {Aspergillus aculeatus [TaxId: 5053]} Back     information, alignment and structure
>d1nkga1 b.3.1.2 (A:251-337) Rhamnogalacturonase B, RhgB, middle domain {Aspergillus aculeatus [TaxId: 5053]} Back     information, alignment and structure
>d1h8la1 b.3.2.1 (A:305-383) Carboxypeptidase D C-terminal domain {Crested duck (Lophonetta specularioides) [TaxId: 8836]} Back     information, alignment and structure
>d1vlfn1 b.3.5.1 (N:196-274) Transhydroxylase beta subunit, BthL, C-terminal domain {Pelobacter acidigallici [TaxId: 35816]} Back     information, alignment and structure
>d1uwya1 b.3.2.1 (A:297-403) Carboxypeptidase M C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1xpna_ b.3.7.1 (A:) Hypothetical protein PA1324 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2b59b2 b.3.2.2 (B:8-103) Cellulosomal scaffolding protein A {Clostridium thermocellum [TaxId: 1515]} Back     information, alignment and structure
>d2burb1 b.3.6.1 (B:303-540) Protocatechuate-3,4-dioxygenase, beta chain {Acinetobacter calcoaceticus, adp1 [TaxId: 471]} Back     information, alignment and structure
>d3pccm_ b.3.6.1 (M:) Protocatechuate-3,4-dioxygenase, beta chain {Pseudomonas putida [TaxId: 303]} Back     information, alignment and structure
>d1w9sa_ b.18.1.10 (A:) Hypothetical protein BH0236 {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure
>d3pcca_ b.3.6.1 (A:) Protocatechuate-3,4-dioxygenase, alpha chain {Pseudomonas putida [TaxId: 303]} Back     information, alignment and structure
>d2bura1 b.3.6.1 (A:4-200) Protocatechuate-3,4-dioxygenase, alpha chain {Acinetobacter calcoaceticus, adp1 [TaxId: 471]} Back     information, alignment and structure
>d1dmha_ b.3.6.1 (A:) Catechol 1,2-dioxygenase {Acinetobacter calcoaceticus [TaxId: 471]} Back     information, alignment and structure
>d1s9aa_ b.3.6.1 (A:) Chlorocatechol 1,2-dioxygenase {Rhodococcus opacus [TaxId: 37919]} Back     information, alignment and structure
>d1od3a_ b.18.1.10 (A:) Putative xylanase {Clostridium stercorarium [TaxId: 1510]} Back     information, alignment and structure
>d1uxxx_ b.18.1.10 (X:) Carbohydrate binding module from xylanase U {Clostridium thermocellum [TaxId: 1515]} Back     information, alignment and structure
>d1cwva1 b.1.14.1 (A:503-596) Invasin {Yersinia pseudotuberculosis [TaxId: 633]} Back     information, alignment and structure
>d1uxza_ b.18.1.10 (A:) Cellulase B (lichenase 5a) {Cellvibrio mixtus [TaxId: 39650]} Back     information, alignment and structure
>d1uy4a_ b.18.1.10 (A:) Putative xylanase {Clostridium stercorarium [TaxId: 1510]} Back     information, alignment and structure
>d1jz8a3 b.18.1.5 (A:13-219) beta-Galactosidase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure