Citrus Sinensis ID: 011825

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------
MVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
ccEEcccccccccccccccccccccccccEEEEEcccccccccEEEcEEEEccccccccEEEEEEccccEEEEEEccccccccccccEEcccccccccEEEEEEEcccccccEEEcccccccccEEEccEEEEEEccccccccccHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEEEccccccccccEEEEcccccccccccccccccEEEEEEcccccEEEccEEcEEEEEEEEEccEEEEEEEEEEEEEEEccEEEEccEEEEccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccEEEEEEEEccccccccEEEEEEEEcccccccccEEEEEEEEcccccccEEEEcccccccccccccccccccEEEEEEEEEEEEEEEEEEEcccEEEEccEEEEEEEccccccccEEEEEEEEEccccc
ccccccccccccccccccccccccccccccEEccccccccccccEcccEEEccccccccEEEEEEccccEEEEEEEcccccccccccHHHcHccccccEHHHEEcccccccccccccccccccccccccEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccEEEEEEEEEccccccccccEEEEEEccccccEEEEEcccEEEEEEEccccEEEEccccccEEEEEEEEcccEEEEEEccEEEEEcccEEEccEEEEEccccccEEEEEccccccccccccccccccccccccccccHHHHHHccHHHHHHccccccEEEEEccccccccccEcEEEEEccccccccccEEEEEEccccccccccEEEEEEEHHHcccccEEEEcccccccccccccccccccEEEccEEccEEEEEEEEcHHHHEccccEEEEEEEcccccccEEEEEEEEEcccccc
mviadnrhrqmplpedlstgrgqplaypeavqlvnptdpehqgevddkyqyscenkdlkvhgwicrttpvgfwliipsdefrsggplkqnltshvgptTLAVFLSGHYagkymethigqdepwkkvfGPVFIYlnsaadgddplwLWEDAKIKMMSEvqswpynfpasedfqkseergcvsgrllvqdsndvisangayvglappgdvgswqteckdyqfwttadedgcfsiknirtgnynlyawvpgfvgdyrsDALVTItsgsnikmgdlvyepprdgptlweigipdrsarefnvpdpdpkyvnrlfvnhpdrfrqyglwsrytelypnedlvyTIGVSDYSKDWFFAQVVREMdnktyqgtTWQIKFKLdhvdrnssYKLRVAIASATLAELQVrvndpnanrplfttgligrdnaiaRHGIHGLYLLYhvnipgtrfiegentiflkqprctspfqgimydyirlegppvs
mviadnrhrqmplpedlstgrGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITsgsnikmgdlvyEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAElqvrvndpnanrPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIrlegppvs
MVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
***********************************************KYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPA**********GCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVP*PDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRL******
*VIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP**
MVIADNRHRQMPLP********QPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
***********PLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP**
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MVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPPVS
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 ?
Query476 2.2.26 [Sep-21-2011]
Q8RJP2578 Rhamnogalacturonate lyase yes no 0.836 0.688 0.264 3e-25
Q5AZ85660 Rhamnogalacturonate lyase yes no 0.892 0.643 0.248 1e-16
B8N5T6663 Probable rhamnogalacturon N/A no 0.838 0.601 0.235 7e-16
Q0C7K7660 Probable rhamnogalacturon N/A no 0.901 0.65 0.229 3e-14
A5ABH4706 Probable rhamnogalacturon yes no 0.789 0.532 0.238 3e-12
Q4WR79658 Probable rhamnogalacturon no no 0.815 0.589 0.243 4e-12
B0XPA2658 Probable rhamnogalacturon N/A no 0.815 0.589 0.243 4e-12
A1D144658 Probable rhamnogalacturon N/A no 0.823 0.595 0.228 3e-11
Q5B5P1 1041 Probable rhamnogalacturon no no 0.630 0.288 0.252 3e-08
Q2U5P7695 Probable rhamnogalacturon no no 0.623 0.427 0.254 1e-07
>sp|Q8RJP2|RHIE_DICD3 Rhamnogalacturonate lyase OS=Dickeya dadantii (strain 3937) GN=rhiE PE=1 SV=1 Back     alignment and function desciption
 Score =  116 bits (291), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 123/465 (26%), Positives = 181/465 (38%), Gaps = 67/465 (14%)

Query: 18  STGRGQPLAYPEAVQLVNPTDPEHQ---GEVDDKYQYSCENKDLKVHGWICRTTPVGFWL 74
           S  RG PL Y E  QL    D   +   G V  KY ++   ++ +   W       G W+
Sbjct: 172 SIRRGTPLLYDELEQLPKVQDETWRLPDGSVYSKYDFAGYQRESRY--WGVMGNGYGAWM 229

Query: 75  IIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYL 134
           +  S E+ SG  LKQ L  H     L      H+    M    G    ++K++GP  +Y+
Sbjct: 230 VPASGEYYSGDALKQELLVHQDAIILNYLTGSHFGTPDMVAQPG----FEKLYGPWLLYI 285

Query: 135 NSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDVIS 194
           N   D +    L  D   +   E  SWPY +   +D +   +R  VSGRL  +  +  + 
Sbjct: 286 NQGNDRE----LVADVSRRAEHERASWPYRW--LDDARYPRQRATVSGRLRTEAPHATVV 339

Query: 195 ANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGDYR 254
            N +           ++  +   Y F    + DG FS+ N+  G Y L A+  G      
Sbjct: 340 LNSS---------AENFDIQTTGYLFSARTNRDGRFSLSNVPPGEYRLSAYADGGTQIGL 390

Query: 255 SDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHP 314
                    G   ++G +    P   P  W IG  DR A EF             F + P
Sbjct: 391 LAQQTVRVEGKKTRLGQIDARQP--APLAWAIGQADRRADEFR------------FGDKP 436

Query: 315 DRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLD 374
            ++R    W   TE+    DL + IG S   KDW++AQ          Q  +W I F   
Sbjct: 437 RQYR----WQ--TEV--PADLTFEIGKSRERKDWYYAQT---------QPGSWHILFNTR 479

Query: 375 HVDRNSSYKLRVAIASATLAELQVRVNDP----NANRPLFTTGLIGRDNAIARHGIH-GL 429
             ++   Y L +AIA+A+   +    + P      N  L TT     D +I R  +  G 
Sbjct: 480 TPEQ--PYTLNIAIAAASNNGMTTPASSPQLAVKLNGQLLTTLKYDNDKSIYRGAMQSGR 537

Query: 430 YLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 474
           Y   H+ +P     +G N I L+          +MYD I L   P
Sbjct: 538 YHEAHIPLPAGALQQGGNRITLELLGGM-----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|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|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|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|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
>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

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 ?
Query476
224081899 629 predicted protein [Populus trichocarpa] 0.995 0.753 0.788 0.0
255572840 633 lyase, putative [Ricinus communis] gi|22 0.997 0.750 0.738 0.0
359492972 643 PREDICTED: probable rhamnogalacturonate 0.995 0.737 0.744 0.0
356515685 643 PREDICTED: probable rhamnogalacturonate 1.0 0.740 0.724 0.0
357466851 715 Rhamnogalacturonate lyase [Medicago trun 0.997 0.664 0.742 0.0
224063361 626 predicted protein [Populus trichocarpa] 0.989 0.752 0.734 0.0
302142095 656 unnamed protein product [Vitis vinifera] 0.995 0.722 0.742 0.0
255572842 642 lyase, putative [Ricinus communis] gi|22 0.997 0.739 0.728 0.0
356510088 643 PREDICTED: rhamnogalacturonate lyase B-l 1.0 0.740 0.716 0.0
356515683 636 PREDICTED: rhamnogalacturonate lyase-lik 0.997 0.746 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 =  780 bits (2015), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/477 (78%), Positives = 412/477 (86%), Gaps = 3/477 (0%)

Query: 1   MVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKV 60
           M IADNR R MPLP+D   GR Q LAYPEAV LVNP  PE  GEVDDKYQYSCENKD +V
Sbjct: 140 MAIADNRQRLMPLPDDRLPGRCQALAYPEAVILVNPKLPELTGEVDDKYQYSCENKDNQV 199

Query: 61  HGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQD 120
           HGWIC   PVGFW I PSDEFR+ GPLKQNLTSHVGPTTLA+F S HYAGK +   I   
Sbjct: 200 HGWICFKPPVGFWQITPSDEFRTAGPLKQNLTSHVGPTTLAMFHSSHYAGKDLVLSISPG 259

Query: 121 EPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCV 180
           EPWKKVFGPVFIYLNSA++G+DPL+LWEDAK++MM+EVQSWPY+FPASEDFQKSE+RG V
Sbjct: 260 EPWKKVFGPVFIYLNSASNGEDPLFLWEDAKMQMMAEVQSWPYSFPASEDFQKSEQRGNV 319

Query: 181 SGRLLVQD---SNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRT 237
            GRLLV+D   S+D I A+GAYVGLAPPGDVGSWQTECKDYQFWT ADE+G FSIKNIRT
Sbjct: 320 CGRLLVKDRNISDDYILASGAYVGLAPPGDVGSWQTECKDYQFWTRADENGYFSIKNIRT 379

Query: 238 GNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFN 297
           G+YNLYAWVPGF+GDYR DA+V I SG ++ MGDLVYEPPRDGPTLWEIGIPDRSA EF 
Sbjct: 380 GDYNLYAWVPGFLGDYRWDAIVNIISGCDMDMGDLVYEPPRDGPTLWEIGIPDRSAAEFY 439

Query: 298 VPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREM 357
           +P PDPK++N L+ NHPDRFRQYGLW RY +LYP+ DLVYT+G+SDY KDWFFAQVVR  
Sbjct: 440 IPGPDPKFMNNLYANHPDRFRQYGLWGRYADLYPDTDLVYTVGLSDYRKDWFFAQVVRRK 499

Query: 358 DNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGR 417
           D+ T  GTTWQIKFKLD VDRNSSYKLRVAIASATLAELQVRVND  A RPLFT+GLIGR
Sbjct: 500 DDDTQVGTTWQIKFKLDKVDRNSSYKLRVAIASATLAELQVRVNDAKAQRPLFTSGLIGR 559

Query: 418 DNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 474
           DNAIARHGIHGLY LY+VNIPG R +EGENTIFL QPRCTSPFQG+MYDYIRLEGPP
Sbjct: 560 DNAIARHGIHGLYRLYNVNIPGARLVEGENTIFLTQPRCTSPFQGLMYDYIRLEGPP 616

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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|359492972|ref|XP_002285626.2| PREDICTED: probable rhamnogalacturonate lyase B-like isoform 1 [Vitis vinifera] 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|357466851|ref|XP_003603710.1| Rhamnogalacturonate lyase [Medicago truncatula] gi|355492758|gb|AES73961.1| Rhamnogalacturonate lyase [Medicago truncatula] 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|302142095|emb|CBI19298.3| unnamed protein product [Vitis vinifera] 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|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 ?
Query476
TAIR|locus:2024331675 AT1G09910 [Arabidopsis thalian 0.993 0.700 0.708 6.5e-193
TAIR|locus:2024427617 AT1G09890 [Arabidopsis thalian 0.991 0.764 0.675 2.2e-185
TAIR|locus:2136007646 AT4G24430 [Arabidopsis thalian 0.997 0.735 0.651 4.5e-178
TAIR|locus:2024417631 AT1G09880 [Arabidopsis thalian 0.993 0.749 0.627 9.4e-169
TAIR|locus:2066040677 AT2G22620 [Arabidopsis thalian 0.987 0.694 0.593 9.2e-155
TAIR|locus:2121095667 AT4G38030 [Arabidopsis thalian 0.989 0.706 0.574 6.5e-154
TAIR|locus:2121090678 AT4G37950 [Arabidopsis thalian 0.985 0.691 0.574 1.9e-147
TAIR|locus:2200390248 AT1G65210 "AT1G65210" [Arabido 0.386 0.741 0.589 1.9e-58
ASPGD|ASPL0000007043660 rglB [Emericella nidulans (tax 0.865 0.624 0.260 6.8e-18
UNIPROTKB|Q5AZ85660 rglB "Rhamnogalacturonate lyas 0.865 0.624 0.260 6.8e-18
TAIR|locus:2024331 AT1G09910 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1869 (663.0 bits), Expect = 6.5e-193, P = 6.5e-193
 Identities = 338/477 (70%), Positives = 389/477 (81%)

Query:     1 MVIADNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKV 60
             M +AD+R R MP P+DL  GR Q L Y EA  L  P DP  QGEVDDKYQYSCENKDL+V
Sbjct:   199 MAVADDRKRIMPFPDDLCKGRCQTLDYQEASLLTAPCDPRLQGEVDDKYQYSCENKDLRV 258

Query:    61 HGWICRTTPVGFWLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQD 120
             HGWI    PVGFW I PS+EFRSGGPLKQNLTSHVGPTTLAVF S HYAGK M       
Sbjct:   259 HGWISFDPPVGFWQITPSNEFRSGGPLKQNLTSHVGPTTLAVFHSTHYAGKTMMPRFEHG 318

Query:   121 EPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCV 180
             EPWKKV+GPVFIYLNS A+GDDPL LW+DAKIKMM+EV+ WPY+F AS+D+ KSEERG  
Sbjct:   319 EPWKKVYGPVFIYLNSTANGDDPLCLWDDAKIKMMAEVERWPYSFVASDDYPKSEERGTA 378

Query:   181 SGRLLVQD---SNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRT 237
              GRLL++D   +ND+ISA GAYVGLAPPGD GSWQ ECK YQFW  ADE G FSI N+R 
Sbjct:   379 RGRLLIRDRFINNDLISARGAYVGLAPPGDSGSWQIECKGYQFWAIADEAGYFSIGNVRP 438

Query:   238 GNYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFN 297
             G YNLYAWVP F+GDY +  +V +TSG  I+MGD+VYEPPRDGPTLWEIGIPDR A EF 
Sbjct:   439 GEYNLYAWVPSFIGDYHNGTIVRVTSGCMIEMGDIVYEPPRDGPTLWEIGIPDRKASEFF 498

Query:   298 VPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREM 357
             +PDPDP  VNR+ V+H DRFRQYGLW +YT++YPN+DLVYT+GVSDY +DWFFA V R+ 
Sbjct:   499 IPDPDPTLVNRVLVHHQDRFRQYGLWKKYTDMYPNDDLVYTVGVSDYRRDWFFAHVPRKK 558

Query:   358 DNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATLAELQVRVNDPNANRPLFTTGLIGR 417
              +  ++GTTWQI F L+++D+ ++YKLRVAIASATLAELQ+R+ND  A RPLFTTGLIGR
Sbjct:   559 GD-VHEGTTWQIIFNLENIDQKANYKLRVAIASATLAELQIRINDAEAIRPLFTTGLIGR 617

Query:   418 DNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQGIMYDYIRLEGPP 474
             DN+IARHGIHG+Y+LY VNIPG R ++G+NTIFLKQPRC  PFQGIMYDYIRLEGPP
Sbjct:   618 DNSIARHGIHGVYMLYAVNIPGNRLVQGDNTIFLKQPRCNGPFQGIMYDYIRLEGPP 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:2066040 AT2G22620 [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: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 ?

No EC number assignment, probably not an enzyme!

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 ?
Query476
cd10317161 cd10317, RGL4_C, C-terminal domain of rhamnogalact 8e-55
cd10320265 cd10320, RGL4_N, N-terminal catalytic domain of rh 6e-39
cd1031692 cd10316, RGL4_M, Middle domain of rhamnogalacturon 2e-35
pfam06045220 pfam06045, Rhamnogal_lyase, Rhamnogalacturonate ly 4e-13
pfam1362081 pfam13620, CarboxypepD_reg, Carboxypeptidase regul 4e-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 = 8e-55
 Identities = 70/190 (36%), Positives = 84/190 (44%), Gaps = 31/190 (16%)

Query: 284 WEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSD 343
           W+IG PDR+A EF   D  P Y                       L P  DL YT+G SD
Sbjct: 1   WQIGTPDRTAAEFRNGDLLPNYHPS-----------------DWRLAPPGDLTYTVGSSD 43

Query: 344 YSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATL-AELQVRVND 402
              DW++AQ V            W I+F L  V       LR+A+A A+     QVRVND
Sbjct: 44  SDFDWYYAQSV---------NGPWTIRFDLTAVQATGGATLRIALAGASAGGRPQVRVND 94

Query: 403 PNANRPLFTTGLIGRD-NAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTSPFQ 461
              N PL  T   G D   I R    G Y LY  +IP +  + G NTI L     +S   
Sbjct: 95  ---NGPLLPTAPTGNDSRGIYRGAYRGNYHLYEFDIPASLLVAGTNTITLTVVSGSSLSP 151

Query: 462 GIMYDYIRLE 471
           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|199904 cd10316, RGL4_M, Middle 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|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 476
PF14683167 CBM-like: Polysaccharide lyase family 4, domain II 100.0
PF09284249 RhgB_N: Rhamnogalacturonase B, N-terminal; InterPr 99.91
PF1468695 fn3_3: Polysaccharide lyase family 4, domain II; P 99.88
PF1362082 CarboxypepD_reg: Carboxypeptidase regulatory-like 98.88
PF1371588 DUF4480: Domain of unknown function (DUF4480) 98.59
cd03863375 M14_CPD_II The second carboxypeptidase (CP)-like d 98.16
cd03865402 M14_CPE_H Peptidase M14 Carboxypeptidase (CP) E (C 98.11
cd03864392 M14_CPN Peptidase M14 Carboxypeptidase N (CPN, als 98.09
cd06245363 M14_CPD_III The third carboxypeptidase (CP)-like d 97.92
cd03858374 M14_CP_N-E_like Carboxypeptidase (CP) N/E-like sub 97.76
cd03868372 M14_CPD_I The first carboxypeptidase (CP)-like dom 97.76
cd03867395 M14_CPZ Peptidase M14-like domain of carboxypeptid 97.49
cd03866376 M14_CPM Peptidase M14 Carboxypeptidase (CP) M (CPM 96.92
PRK15036137 hydroxyisourate hydrolase; Provisional 96.21
PF08400134 phage_tail_N: Prophage tail fibre N-terminal; Inte 95.83
PF0830871 PEGA: PEGA domain; InterPro: IPR013229 This domain 95.77
PF03422125 CBM_6: Carbohydrate binding module (family 6); Int 95.21
cd03869405 M14_CPX_like Peptidase M14-like domain of carboxyp 94.69
PF0573870 Cna_B: Cna protein B-type domain; InterPro: IPR008 94.44
PF09430123 DUF2012: Protein of unknown function (DUF2012); In 94.01
KOG1948 1165 consensus Metalloproteinase-related collagenase pM 94.0
cd00421146 intradiol_dioxygenase Intradiol dioxygenases catal 93.91
COG3485226 PcaH Protocatechuate 3,4-dioxygenase beta subunit 92.94
cd03463185 3,4-PCD_alpha Protocatechuate 3,4-dioxygenase (3,4 91.74
cd03459158 3,4-PCD Protocatechuate 3,4-dioxygenase (3,4-PCD) 91.14
PF03170 605 BcsB: Bacterial cellulose synthase subunit; InterP 91.13
cd03462247 1,2-CCD chlorocatechol 1,2-dioxygenases (1,2-CCDs) 90.87
TIGR02465246 chlorocat_1_2 chlorocatechol 1,2-dioxygenase. Memb 90.67
PF0721085 DUF1416: Protein of unknown function (DUF1416); In 90.52
PF0749566 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This regi 90.42
KOG1948 1165 consensus Metalloproteinase-related collagenase pM 90.35
PF00775183 Dioxygenase_C: Dioxygenase; InterPro: IPR000627 Th 89.51
cd03464220 3,4-PCD_beta Protocatechuate 3,4-dioxygenase (3,4- 88.97
TIGR02423193 protocat_alph protocatechuate 3,4-dioxygenase, alp 88.74
cd03458256 Catechol_intradiol_dioxygenases Catechol intradiol 88.32
TIGR02438281 catachol_actin catechol 1,2-dioxygenase, Actinobac 86.89
TIGR02422220 protocat_beta protocatechuate 3,4-dioxygenase, bet 86.78
smart00606129 CBD_IV Cellulose Binding Domain Type IV. 85.86
PF02837167 Glyco_hydro_2_N: Glycosyl hydrolases family 2, sug 85.39
PRK11114 756 cellulose synthase regulator protein; Provisional 85.05
TIGR02962112 hdxy_isourate hydroxyisourate hydrolase. Members o 84.56
cd03461277 1,2-HQD Hydroxyquinol 1,2-dioxygenase (1,2-HQD) ca 84.36
cd03460282 1,2-CTD Catechol 1,2 dioxygenase (1,2-CTD) catalyz 84.02
PF00576112 Transthyretin: HIUase/Transthyretin family; InterP 83.27
PF13364111 BetaGal_dom4_5: Beta-galactosidase jelly roll doma 82.78
TIGR02439285 catechol_proteo catechol 1,2-dioxygenase, proteoba 82.57
cd05821121 TLP_Transthyretin Transthyretin (TTR) is a 55 kDa 81.06
>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=8.5e-47  Score=351.91  Aligned_cols=165  Identities=52%  Similarity=0.885  Sum_probs=114.2

Q ss_pred             CCeEEEeccCCCccccccCCCCccccccccccCCchhhcccchhcccccCCCCCeeEEeeccCCCCCceeEEEEEecCCc
Q 011825          281 PTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNK  360 (476)
Q Consensus       281 ~~LweIG~~Drt~~~F~~~d~~~~~~~k~~~~hp~~~R~yglW~~y~~~~P~~dl~ytVG~S~~~~Dw~ya~~~~~~~~~  360 (476)
                      ++|||||+|||++.||+++|+             +++|||| |++|+++||++|++||||+| +++||||||+++  .+ 
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 889999999964  33 


Q ss_pred             ccCcccEEEEEEeCCCCCCCcEEEEEEEecc-CCCeEEEEEcCCCCCCCcccccccCCCCeeeceeee-eecEEEEEEee
Q 011825          361 TYQGTTWQIKFKLDHVDRNSSYKLRVAIASA-TLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIH-GLYLLYHVNIP  438 (476)
Q Consensus       361 ~~~~~~w~I~F~L~~~~~~~~~tLriala~a-~~~~~~V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~-G~~~~~~~~ip  438 (476)
                          ++|+|+|+|++++..+.+||||+||++ ++++++|+|||+..  +++ ...+++|++++|++++ |+|++++|+||
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                899999999999877799999999999 79999999999544  233 2467899999999998 99999999999


Q ss_pred             CCCeeeeecEEEEEeecCCCCCceEEEEEEEE
Q 011825          439 GTRFIEGENTIFLKQPRCTSPFQGIMYDYIRL  470 (476)
Q Consensus       439 a~~L~~G~NtI~l~~~~gss~~~~vmyD~IrL  470 (476)
                      +++|++|+|+|+|++++|++.+.|||||||||
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
>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
>cd03858 M14_CP_N-E_like Carboxypeptidase (CP) N/E-like subfamily of the M14 family of metallocarboxypeptidases (MCPs) 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
>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
>PRK15036 hydroxyisourate hydrolase; Provisional 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
>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
>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
>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
>KOG1948 consensus Metalloproteinase-related collagenase pM5 [Posttranslational modification, protein turnover, chaperones] 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
>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
>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
>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
>TIGR02465 chlorocat_1_2 chlorocatechol 1,2-dioxygenase 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
>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
>KOG1948 consensus Metalloproteinase-related collagenase pM5 [Posttranslational modification, protein turnover, chaperones] 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
>cd03464 3,4-PCD_beta Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit Back     alignment and domain information
>TIGR02423 protocat_alph protocatechuate 3,4-dioxygenase, alpha subunit 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
>TIGR02422 protocat_beta protocatechuate 3,4-dioxygenase, beta subunit Back     alignment and domain information
>smart00606 CBD_IV Cellulose Binding Domain Type IV 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
>PRK11114 cellulose synthase regulator protein; Provisional Back     alignment and domain information
>TIGR02962 hdxy_isourate hydroxyisourate hydrolase 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
>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
>PF00576 Transthyretin: HIUase/Transthyretin family; InterPro: IPR023416 This family includes transthyretin that is a thyroid hormone-binding protein that transports thyroxine from the bloodstream to the brain Back     alignment and domain information
>PF13364 BetaGal_dom4_5: Beta-galactosidase jelly roll domain; PDB: 1TG7_A 1XC6_A 3OGS_A 3OGV_A 3OGR_A 3OG2_A Back     alignment and domain information
>TIGR02439 catechol_proteo catechol 1,2-dioxygenase, proteobacterial Back     alignment and domain information
>cd05821 TLP_Transthyretin Transthyretin (TTR) is a 55 kDa protein responsible for the transport of thyroid hormones and retinol in vertebrates 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 ?
Query476
1nkg_A508 Rhamnogalacturonase B; polysaccharide lyase, carbo 1e-116
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
>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 =  351 bits (902), Expect = e-116
 Identities = 81/464 (17%), Positives = 143/464 (30%), Gaps = 78/464 (16%)

Query: 13  LPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGF 72
           LP +   G     A   A++  +        E   K+  S    D + H           
Sbjct: 117 LPNEEPFGDVSTTADGTAIEGSDVFLVG--SETRSKFYSSERFIDDQRHCIA--GDAHRV 172

Query: 73  WLIIPSDEFRSGGPLKQNLTSHVGPTTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFI 132
            +I+   E  SGGP  +++ S+ G +  A++   +        H+  +     + GP  +
Sbjct: 173 CMILNQYESSSGGPFHRDINSNNGGSYNALYWYMNSG------HVQTESYRMGLHGPYSM 226

Query: 133 YLNSAADGDDPLWLWEDAKIKMMSEVQSWPYNFPASEDFQKSEERGCVSGRLLVQDSNDV 192
           Y +       P    + +            +     + +  +  RG V+G          
Sbjct: 227 YFS---RSGTPSTSIDTSF-----------FADLDIKGYVAASGRGKVAGT--------- 263

Query: 193 ISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTGNYNLYAWVPGFVGD 252
                     A               Q+WT     G F+   ++ G Y +  +   +   
Sbjct: 264 -------ASGADSSMDWVVHWYNDAAQYWTYTSSSGSFTSPAMKPGTYTMVYYQGEYAVA 316

Query: 253 YRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVN 312
             S   VT+++GS       +    + G T+++IG  D     F       +        
Sbjct: 317 TSS---VTVSAGSTTTKN--ISGSVKTGTTIFKIGEWDGQPTGF-------RNAANQLRM 364

Query: 313 HPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFK 372
           HP   R          +     L YT+G S  + D+  A                 IKF 
Sbjct: 365 HPSDSR----------MSSWGPLTYTVGSSALT-DFPMAVF-------KSVNNPVTIKFT 406

Query: 373 LDHVDRNSSYKLRVAIASA-TLAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYL 431
                   +  LR+    +      Q  +N    + P   T L      + R    GL  
Sbjct: 407 ATSAQ-TGAATLRIGTTLSFAGGRPQATINSYTGSAPAAPTNLD--SRGVTRGAYRGLGE 463

Query: 432 LYHVNIPGTRFIEGENTIFLKQPRCTSPF----QGIMYDYIRLE 471
           +Y V+IP    + G NTI +     +S         ++D + L 
Sbjct: 464 VYDVSIPSGTIVAGTNTITINVISGSSGDTYLSPNFIFDCVELF 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 ?
Query476
1nkg_A508 Rhamnogalacturonase B; polysaccharide lyase, carbo 100.0
2nsm_A439 Carboxypeptidase N catalytic chain; caroxypeptidas 98.08
1h8l_A380 Carboxypeptidase GP180 residues 503-882; hydrolase 98.01
3mn8_A435 LP15968P; catalytic domain of alpha/beta-hydrolase 97.93
1uwy_A426 Carboxypeptidase M; metallopeptidase, GPI-anchor, 97.89
1xpn_A170 Hypothetical protein PA1324; B-barrel, structural 97.05
3qec_A150 Putative carbohydrate binding protein; suramin bin 96.85
4aw7_A591 GH86A beta-porphyranase; hydrolase, porphyran-hexa 96.57
2wz8_A156 Cellulosome protein dockerin type I; sugar binding 96.52
2w87_A139 Esterase D, XYL-CBM35; plant cell WALL degradation 96.36
2w3j_A145 Carbohydrate binding module; sugar-binding protein 96.1
2w47_A144 Lipolytic enzyme, G-D-S-L; hydrolase; HET: UNF; 1. 95.88
2bgo_A140 Endo-B1,4-mannanase 5C; carbohydrate binding prote 95.09
2vzp_A127 Aocbm35, EXO-beta-D-glucosaminidase; family 35, CS 94.68
3kcp_A321 Cellulosomal-scaffolding protein A; dockerin, X-mo 93.94
2xsu_A312 Catechol 1,2 dioxygenase; oxidoreductase; HET: PIE 92.4
2azq_A311 Catechol 1,2-dioxygenase; CTD, lipid, isozyme, int 91.36
1uxz_A131 Cellulase B; carbohydrate binding module, CBM6, mi 91.04
2boy_A254 3-chlorocatechol 1,2-dioxygenase; beta barrel, oxi 90.66
3th1_A260 Chlorocatechol 1,2-dioxygenase; catechol 1,2-dioxy 89.56
2bum_B241 Protocatechuate 3,4-dioxygenase beta chain; oxidor 89.5
3t63_M238 3,4-PCD, protocatechuate 3,4-dioxygenase beta chai 89.3
2y8k_A491 Arabinoxylanase, carbohydrate binding family 6; hy 88.8
1tmx_A293 Hydroxyquinol 1,2-dioxygenase; beta barrel, oxidor 88.34
2bum_A209 Protocatechuate 3,4-dioxygenase alpha chain; oxido 87.66
2cdp_A160 Beta-agarase 1; carbohydrate-binding module, hydro 87.09
1dmh_A311 1,2-CTD, catechol 1,2-dioxygenase; aromatic hydroc 87.04
3n9t_A290 PNPC; phospholipid binds, N-terminal helix tunnel, 87.0
3hhy_A280 1,2-CTD, catechol 1,2-dioxygenase; beta-sandwich, 85.81
3t63_A200 3,4-PCD, protocatechuate 3,4-dioxygenase alpha cha 85.71
2h4e_A127 Transthyretin; amyloid, sulfite, familial amyloido 84.51
1ti6_B274 Pyrogallol hydroxytransferase small subunit; molyb 84.09
3o5u_A257 Chlorocatechol 1,2-dioxygenase; beta barrel,oxidor 84.05
1w9s_A142 BH0236 protein, BHCBM6; carbohydrate-binding modul 83.98
2g2n_A114 Transthyretin-like protein; transthyretin-related 83.21
3irp_X429 URO-adherence factor A; DEV-IGG fold, cell WALL, h 81.47
>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=1.9e-105  Score=852.91  Aligned_cols=380  Identities=21%  Similarity=0.279  Sum_probs=339.6

Q ss_pred             ccccccCCCCcCCCCCCCccccccceeeecCCCCCCCcceEeeeeeeecccccccEEEEEecCCCeEEEEEcCCCccccC
Q 011825            5 DNRHRQMPLPEDLSTGRGQPLAYPEAVQLVNPTDPEHQGEVDDKYQYSCENKDLKVHGWICRTTPVGFWLIIPSDEFRSG   84 (476)
Q Consensus         5 d~r~~~mp~~~d~~~~~~~~~~~~ea~~~~~~~~~~~~G~~~sKY~~s~~~~d~~vhG~~~~g~~vG~W~I~~s~E~~sG   84 (476)
                      +++||+||+|+|+   ++++ ++.|.+       +.++|+++||||||+++||++||||++  ++||||||+||+||++|
T Consensus       118 ~~~~r~~~~p~~~---~~~~-v~~~d~-------~~l~G~~~~KY~~s~~~~D~~vhG~~~--~~vG~w~I~~s~E~~sG  184 (508)
T 1nkg_A          118 PNEEPFGDVSTTA---DGTA-IEGSDV-------FLVGSETRSKFYSSERFIDDQRHCIAG--DAHRVCMILNQYESSSG  184 (508)
T ss_dssp             CEEETTGGGGCCT---TCEE-EETTTE-------EEETTEEEEGGGGCCBGGGCSEEEEEC--SSCEEEEECCCCTTCSS
T ss_pred             CCccccCCCCccc---cCcE-eeeccc-------eeeCCEEccceeccccceecceEEEEC--CCeEEEEEcCCcccccC
Confidence            5668999999987   3555 344433       456899999999999999999999974  99999999999999999


Q ss_pred             CCceeccccccCC---cEEEEEeeccccCCccccccCCCCCCceeeceEEEEEcCCCCCCCcchhHHHHHHHHhhhhcCC
Q 011825           85 GPLKQNLTSHVGP---TTLAVFLSGHYAGKYMETHIGQDEPWKKVFGPVFIYLNSAADGDDPLWLWEDAKIKMMSEVQSW  161 (476)
Q Consensus        85 GP~kqdL~~h~g~---~~l~y~~s~H~~g~~~~~~~~~Ge~w~k~~GP~~~y~n~g~~~~~~~~l~~Da~~~~~~E~~~w  161 (476)
                      |||||||++|+++   ++|+||+|+|+    ++|+||.|     ||||||||||+|++++                 ++|
T Consensus       185 GP~kqdL~~h~~~~~~~~~~y~~s~H~----~t~~~~~g-----~~GP~~~y~n~g~~~~-----------------~~w  238 (508)
T 1nkg_A          185 GPFHRDINSNNGGSYNALYWYMNSGHV----QTESYRMG-----LHGPYSMYFSRSGTPS-----------------TSI  238 (508)
T ss_dssp             CTTCBCCCEEECSSCEEEEEEEECSTT----CCSCCCCE-----EEEEEEEEEESSCCCC-----------------SCC
T ss_pred             CCcchhhhccCCcccceeeeeEeeccc----cccccccc-----ccccEEEEECCCCCCC-----------------CCC
Confidence            9999999999999   89999999997    57888865     9999999999999863                 599


Q ss_pred             CCCCCCC---CCCCCCCCCeEEEEEEEEecCCCccccCceEEEecCCCCCCCccccccccceEEEeCCCcceEeCcccCc
Q 011825          162 PYNFPAS---EDFQKSEERGCVSGRLLVQDSNDVISANGAYVGLAPPGDVGSWQTECKDYQFWTTADEDGCFSIKNIRTG  238 (476)
Q Consensus       162 py~f~~s---~~y~~~s~RGtVsG~v~~~d~~~~~pa~~a~V~L~~~~~~g~~q~~~~~yqYwt~td~~G~FtI~nV~pG  238 (476)
                      ||+|++|   ++|||+++||+|+|+|+  .   ..++..++|+|.           +++|||||+||++|+|+|++||||
T Consensus       239 pysf~~s~~~~~y~~~~~RGtVsG~V~--G---~~~~~~avv~~~-----------~k~~qywt~td~~G~FtI~~V~pG  302 (508)
T 1nkg_A          239 DTSFFADLDIKGYVAASGRGKVAGTAS--G---ADSSMDWVVHWY-----------NDAAQYWTYTSSSGSFTSPAMKPG  302 (508)
T ss_dssp             CCGGGGGTTCTTCCCGGGCBEEEEEEE--S---SCTTSCEEEEEE-----------CSSCEEEEECCTTCEEECCCBCSE
T ss_pred             CCccccccCccCCcCcccccEEEEEEc--C---ccCCceEEEEEc-----------CCCceeEEEECCCCcEEeCCcCCc
Confidence            9999999   99999999999999988  2   114445677764           599999999999999999999999


Q ss_pred             ceEEEEEECceeeeeeeeeEEEEeCCceeeecceEEcCCCCCCCeEEEeccCCCccccccCCCCccccccccccCCchhh
Q 011825          239 NYNLYAWVPGFVGDYRSDALVTITSGSNIKMGDLVYEPPRDGPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFR  318 (476)
Q Consensus       239 tY~L~a~~~G~~G~~~~~~~VtV~aG~t~~lg~l~~~~~~~~~~LweIG~~Drt~~~F~~~d~~~~~~~k~~~~hp~~~R  318 (476)
                      +|+|+||++|+   ...+.+|+|++|++++++ |+|+++ ++++|||||+|||+|.||+++|+       ..+|||+|+|
T Consensus       303 tY~L~a~~~G~---~~~~~~VtV~aG~t~~l~-i~~~~~-~g~~iW~IG~pDrta~eF~~~d~-------~~~~hp~~~r  370 (508)
T 1nkg_A          303 TYTMVYYQGEY---AVATSSVTVSAGSTTTKN-ISGSVK-TGTTIFKIGEWDGQPTGFRNAAN-------QLRMHPSDSR  370 (508)
T ss_dssp             EEEEEEEETTE---EEEEEEEEECTTCEEECC-EECCCC-CCSEEEEEECSSSSCTTSBTHHH-------HTTSCTTCTT
T ss_pred             eEEEEEEECce---EEEEeEEEEcCCCeeEee-eEEecC-CCCeeEEeeCCCCCchhhcCCCc-------ccccCcchhc
Confidence            99999999987   356667999999999996 999876 79999999999999999999873       3357999999


Q ss_pred             cccchhcccccCCCCCeeEEeeccCCCCCceeEEEEEecCCcccCcccEEEEEEeCCCCCCCcEEEEEEEeccC-CCeEE
Q 011825          319 QYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASAT-LAELQ  397 (476)
Q Consensus       319 ~yglW~~y~~~~P~~dl~ytVG~S~~~~Dw~ya~~~~~~~~~~~~~~~w~I~F~L~~~~~~~~~tLriala~a~-~~~~~  397 (476)
                      || +|+         ||+||||+|++ +|||||||+  .++     ++|+|+|+|+++| .+++||||+||+|. +++++
T Consensus       371 ~~-~W~---------~l~ytVG~S~~-~Dw~ya~~~--~~~-----~~w~I~F~l~~~~-~~~~tLri~la~a~a~~~~q  431 (508)
T 1nkg_A          371 MS-SWG---------PLTYTVGSSAL-TDFPMAVFK--SVN-----NPVTIKFTATSAQ-TGAATLRIGTTLSFAGGRPQ  431 (508)
T ss_dssp             SC-CCC---------SCEEETTTSCG-GGSBSEEET--TTT-----CCEEEEEEECGGG-CSCEEEEEEEEEEETTCEEE
T ss_pred             cc-ccC---------CeEEEeCcCch-hcCCeEEEC--CCC-----CcEEEEEEcCccc-CCceEEEEEehhhccCCCeE
Confidence            99 994         79999999999 799999994  444     8999999999987 78999999999985 89999


Q ss_pred             EEEcCCCCCCCcccccccCCCCeeeceeeeeecEEEEEEeeCCCeeeeecEEEEEeecCCC--CCc--eEEEEEEEEec
Q 011825          398 VRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTS--PFQ--GIMYDYIRLEG  472 (476)
Q Consensus       398 V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~G~~~~~~~~ipa~~L~~G~NtI~l~~~~gss--~~~--~vmyD~IrLe~  472 (476)
                      |+|||+..  +++.++.+++||||+||++||+|++++|+||+++|++|+|+|+|+++++++  +||  +|||||||||.
T Consensus       432 V~VN~~~~--~~~~~~~~~~~~~i~R~~~~G~~~~~~~~ipa~~L~~G~NtI~lt~~~~s~~~~fls~~vmyD~I~L~~  508 (508)
T 1nkg_A          432 ATINSYTG--SAPAAPTNLDSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGSSGDTYLSPNFIFDCVELFQ  508 (508)
T ss_dssp             EEETTEEC--CCCCCCCCCCSCCGGGTCCCSCCCEEEEEECTTSSCSEEEEEEEEEECSCCCSGGGSSEEEEEEEEEEC
T ss_pred             EEECCcCC--cCccccccCCCCeEEecceeeeeEEEEEEEcHHHeecCceEEEEEeccCCCCCccccccEEEEEEEecC
Confidence            99999754  577889999999999999999999999999999999999999999999986  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
>2wz8_A Cellulosome protein dockerin type I; sugar binding protein; 1.50A {Clostridium thermocellum} 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
>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
>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
>2boy_A 3-chlorocatechol 1,2-dioxygenase; beta barrel, oxidoreductase; HET: BHO LPP; 1.9A {Rhodococcus opacus} 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
>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
>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
>2y8k_A Arabinoxylanase, carbohydrate binding family 6; hydrolase; 1.47A {Clostridium thermocellum} Back     alignment and structure
>1tmx_A Hydroxyquinol 1,2-dioxygenase; beta barrel, oxidoreductase; HET: HGX; 1.75A {Pimelobacter simplex} 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
>2cdp_A Beta-agarase 1; carbohydrate-binding module, hydrolase; HET: GAL AAL; 1.59A {Saccharophagus degradans} PDB: 2cdo_A* 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
>3n9t_A PNPC; phospholipid binds, N-terminal helix tunnel, oxidoreductase; HET: HGX FLC; 2.00A {Pseudomonas putida} 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
>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
>2h4e_A Transthyretin; amyloid, sulfite, familial amyloidotic polyne transport protein; HET: CSU; 1.45A {Homo sapiens} SCOP: b.3.4.1 PDB: 2wqa_A* 1zcr_A 1zd6_A 2trh_A 1bz8_A 2qpf_A 1tfp_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
>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
>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
>2g2n_A Transthyretin-like protein; transthyretin-related protein, unknown functi; 1.65A {Escherichia coli} PDB: 2g2p_A 2igl_A 2gpz_A Back     alignment and structure
>3irp_X URO-adherence factor A; DEV-IGG fold, cell WALL, hemagglutinin, peptidoglycan-anchor secreted, virulence, cell adhesion; 1.50A {Staphylococcus saprophyticus subsp} PDB: 3irz_A 3is0_X 3is1_X 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 476
d1nkga2171 b.18.1.25 (A:338-508) Rhamnogalacturonase B, RhgB, 5e-57
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 0.001
>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 = 5e-57
 Identities = 39/196 (19%), Positives = 60/196 (30%), Gaps = 33/196 (16%)

Query: 280 GPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTI 339
           G T+++IG  D     F       +        HP   R                L YT+
Sbjct: 2   GTTIFKIGEWDGQPTGF-------RNAANQLRMHPSDSRMSSW----------GPLTYTV 44

Query: 340 GVSDYSKDWFFAQVVREMDNKTYQGTTWQIKFKLDHVDRNSSYKLRVAIASATL-AELQV 398
           G S  + D+  A                 IKF         +  LR+    +      Q 
Sbjct: 45  GSSALT-DFPMAVF-------KSVNNPVTIKFTATSAQT-GAATLRIGTTLSFAGGRPQA 95

Query: 399 RVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIPGTRFIEGENTIFLKQPRCTS 458
            +N    + P   T        + R    GL  +Y V+IP    + G NTI +     +S
Sbjct: 96  TINSYTGSAPAAPT--NLDSRGVTRGAYRGLGEVYDVSIPSGTIVAGTNTITINVISGSS 153

Query: 459 PFQ----GIMYDYIRL 470
                    ++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 ?
Query476
d1nkga2171 Rhamnogalacturonase B, RhgB, C-terminal domain {As 100.0
d1nkga3250 Rhamnogalacturonase B, RhgB, N-terminal domain {As 99.9
d1nkga187 Rhamnogalacturonase B, RhgB, middle domain {Asperg 99.55
d1h8la179 Carboxypeptidase D C-terminal domain {Crested duck 98.73
d1vlfn179 Transhydroxylase beta subunit, BthL, C-terminal do 98.49
d1uwya1107 Carboxypeptidase M C-terminal domain {Human (Homo 98.02
d1xpna_170 Hypothetical protein PA1324 {Pseudomonas aeruginos 95.98
d2b59b296 Cellulosomal scaffolding protein A {Clostridium th 94.46
d2burb1238 Protocatechuate-3,4-dioxygenase, beta chain {Acine 94.15
d1w9sa_134 Hypothetical protein BH0236 {Bacillus halodurans [ 93.82
d3pcca_200 Protocatechuate-3,4-dioxygenase, alpha chain {Pseu 92.72
d3pccm_236 Protocatechuate-3,4-dioxygenase, beta chain {Pseud 92.51
d1dmha_309 Catechol 1,2-dioxygenase {Acinetobacter calcoaceti 91.85
d2bura1202 Protocatechuate-3,4-dioxygenase, alpha chain {Acin 91.74
d1od3a_132 Putative xylanase {Clostridium stercorarium [TaxId 91.44
d1uxxx_125 Carbohydrate binding module from xylanase U {Clost 90.79
d1s9aa_256 Chlorocatechol 1,2-dioxygenase {Rhodococcus opacus 90.7
d1cwva194 Invasin {Yersinia pseudotuberculosis [TaxId: 633]} 89.64
d1uxza_131 Cellulase B (lichenase 5a) {Cellvibrio mixtus [Tax 87.24
d1uy4a_132 Putative xylanase {Clostridium stercorarium [TaxId 86.55
d1jz8a3207 beta-Galactosidase {Escherichia coli [TaxId: 562]} 85.89
d2je8a4192 Beta-mannosidase {Bacteroides thetaiotaomicron [Ta 80.07
>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=2.8e-49  Score=365.15  Aligned_cols=164  Identities=24%  Similarity=0.335  Sum_probs=150.1

Q ss_pred             CCCeEEEeccCCCccccccCCCCccccccccccCCchhhcccchhcccccCCCCCeeEEeeccCCCCCceeEEEEEecCC
Q 011825          280 GPTLWEIGIPDRSAREFNVPDPDPKYVNRLFVNHPDRFRQYGLWSRYTELYPNEDLVYTIGVSDYSKDWFFAQVVREMDN  359 (476)
Q Consensus       280 ~~~LweIG~~Drt~~~F~~~d~~~~~~~k~~~~hp~~~R~yglW~~y~~~~P~~dl~ytVG~S~~~~Dw~ya~~~~~~~~  359 (476)
                      |++|||||+|||++.||+++|       ++++|||+|+||| -|+         +++||||+|++ +|||||||+  +.+
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-TDFPMAVFK--SVN   61 (171)
T ss_dssp             CSEEEEEECSSSSCTTSBTHH-------HHTTSCTTCTTSC-CCC---------SCEEETTTSCG-GGSBSEEET--TTT
T ss_pred             CCeEEEccCCCCCchhhcCcc-------cchhcCccchhcc-CCC---------CcEEEeCCCCc-ccccEEEEc--CCC
Confidence            789999999999999999864       7899999999999 484         69999999998 599999995  344


Q ss_pred             cccCcccEEEEEEeCCCCCCCcEEEEEEEeccC-CCeEEEEEcCCCCCCCcccccccCCCCeeeceeeeeecEEEEEEee
Q 011825          360 KTYQGTTWQIKFKLDHVDRNSSYKLRVAIASAT-LAELQVRVNDPNANRPLFTTGLIGRDNAIARHGIHGLYLLYHVNIP  438 (476)
Q Consensus       360 ~~~~~~~w~I~F~L~~~~~~~~~tLriala~a~-~~~~~V~vN~~~~~~~~~~~~~~~~~~~i~R~~~~G~~~~~~~~ip  438 (476)
                           ++|+|+|+|+++| .+++||||+||+|. ++++||+|||+..  ++|.++.++++|||+||++||++++++|+||
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  5788899999999999999999999999999


Q ss_pred             CCCeeeeecEEEEEeecCCCC--Cc--eEEEEEEEEe
Q 011825          439 GTRFIEGENTIFLKQPRCTSP--FQ--GIMYDYIRLE  471 (476)
Q Consensus       439 a~~L~~G~NtI~l~~~~gss~--~~--~vmyD~IrLe  471 (476)
                      +++|++|+|+|+|++++|+++  |+  +||||||||.
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            999999999999999999886  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
>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
>d3pccm_ b.3.6.1 (M:) Protocatechuate-3,4-dioxygenase, beta chain {Pseudomonas putida [TaxId: 303]} Back     information, alignment and structure
>d1dmha_ b.3.6.1 (A:) Catechol 1,2-dioxygenase {Acinetobacter calcoaceticus [TaxId: 471]} 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
>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
>d1s9aa_ b.3.6.1 (A:) Chlorocatechol 1,2-dioxygenase {Rhodococcus opacus [TaxId: 37919]} 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
>d2je8a4 b.18.1.5 (A:28-219) Beta-mannosidase {Bacteroides thetaiotaomicron [TaxId: 818]} Back     information, alignment and structure