Superfamily : 47943 [ Retrovirus capsid protein, N-terminal core domain ]
Class : All alpha proteins
Fold : Retrovirus capsid protein, N-terminal core domain
# of Members : 8
Superposed Structure
solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x
beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x
hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla
positive phi: italic x
 
                             10        20        30        40        50  
d1em9a-  (   1 )    pvvikt-egpawtplepklitrLadtvrtkglrs---piTmaeVealMs-
d1g03a-  (   1 )    pvmhphgappnhrpwqmkdlqaikqevsqaapGs---pqfmqtirlAvqq
d1u7ka-  (   1 )    PLrggng-qlqywpFsssdlynwkn---nnpsfsedpgkLtaliesvLtt
d2eiaa2  (  17 )                    prgyttWvntIqtngLLn---eaSqnlFgilSv-
d2wlva-  (   1 )    pVqhvg-gtythiplsprtlnaWvklVeekkF-g---aeVvpgFqalSe-
d2xgva-  (   1 )    pVvnrg--gwayepms-ttvaaWi-qTgekgLts---peTityWgliSq-
d2xgya-  (   1 )    pim--------yepVgpgliaaWlkqvqehgLth---paTityFgviSi-
d4ph2a-  (   1 )    PIisegn-rnrhraWalrelqdikkeIenkapgs---qvWIqtLrlAilq
                     bb       bb     aaaaaaaaaaaa        aaaaaaaaaa   

                             60        70        80        90        100 
d1em9a-  (  46 )    spLLPhDVtnLMrvILg-papyalWmdaWgvqLqtviaaAtrdprhpANG
d1g03a-  (  48 )    fdptakDlqdllqylCs-slvaslHhqqldsliseaetr----g-it---
d1u7ka-  (  48 )    hqPtwdDCqqLLgtLLt-geekqrVlleArkaVrg--nd----grpt---
d2eiaa2  (  47 )    d-ctSeeMnaFLdvVpgqagqkqiLldaIdkiAddwdnrhplpnaplvA-
d2wlva-  (  45 )    g-CTPyDInqMlncVgdhqaAmqiIreiIneeaaewdvqhp--------i
d2xgva-  (  46 )    d-LsSreQvqLlevVpglqadkdmLgayleerArewdaq-pq--------
d2xgya-  (  46 )    n-FTSvDInmLLnvTpg--aekqlVidkIkekaiawdemhppp--pada-
d4ph2a-  (  47 )    adPTPaDLeqLcqyIAs-pvdqtaHmtsLtaaiaaaeaa----ntLq---
                        aaaaaaaaa     aaaaaaaaaaaaaaaaaaaa            

                             110       120       130       140       150 
d1em9a-  (  95 )    qgrg-----erTnlnrLkGladgMvgnpqgQAalL-r----pgELvaIta
d1g03a-  (  89 )    -----synplagplrvqan-----------npqq-------qglrreyqq
d1u7ka-  (  88 )    -----q-lpn--evdaaFplerpd-----wdytt----qrgrnhLvlYrq
d2eiaa2  (  95 )    ----ppqgpIpmtArFIrGl----gVpreRQme-----paFdqFrqtYrq
d2wlva-  (  86 )    pgplpagqlrePrGsDIAGt----tStveeQIqWmfrpqnpvpVGnIYrr
d2xgva-  (  87 )    --------plpYtSahIrGl----tgdqafais-----aqGreAAqvFra
d2xgya-  (  92 )    ----a--gpvpltsdqIrGi----glsp-eAag-----prFadArtlYrt
d4ph2a-  (  89 )    -----gFnpqngtLtqqSa-----------qpn-------agdlRsqYqn
                                 aaaa                        aaaaaaaaa

                             160       
d1em9a-  ( 135 )    SAlqAFreVarla      
d1g03a-  ( 116 )    lWlaAFaalpgsakdpswa
d1u7ka-  ( 121 )    lLlaGqnAgr         
d2eiaa2  ( 132 )    WIieAMseGikvmigk   
d2wlva-  ( 132 )    WIqiGLqkCvrmy      
d2xgva-  ( 120 )    wItqGLmnLaqla      
d2xgya-  ( 127 )    wVleALqecq         
d4ph2a-  ( 116 )    lWLqaWknlptr       
                    aaaaaaa
 

 

Domain IDNameFamilySourceDomainSTRING-DB
RSV capsid proteinRetrovirus capsid protein, N-terminal core domainRous sarcoma virus [TaxId: 11886]view
HTLV-I capsid proteinRetrovirus capsid protein, N-terminal core domainHuman T-cell leukemia virus type 1 [TaxId: 11908]view
AKV capsidRetrovirus capsid protein, N-terminal core domainAKV murine leukemia virus [TaxId: 11791]view
EIAV capsid protein p26Retrovirus capsid protein, N-terminal core domainEquine infectious anemia virus [TaxId: 11665]view
automated matchesRetrovirus capsid protein, N-terminal core domainHuman immunodeficiency virus type 2 (isolate d194) [TaxId: 11713]view
automated matchesautomated matchesMicrocebus murinus [TaxId: 30608]view
automated matchesautomated matchesRabbit (Oryctolagus cuniculus) [TaxId: 9986]view
automated matchesautomated matchesBovine leukemia virus [TaxId: 11901]view

 

No outliers

FeatureDownload
Superfamily
Distance Matrix
Conserved Interactions
Cusp Results
Alistat - Alignment Statistics
SMotif - Conserved Structural Motifs
MeanRMS
PCSSE Details
Absolutely Conserved Residues
Highly Conserved Residues

 

10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160
P V V I K T - E G P A W T P L E P K L I T R L A D T V R T K G L R S - - - P I T M A E V E A L M S - S P L L P H D V T N L M R V I L G - P A P Y A L W M D A W G V Q L Q T V I A A A T R D P R H P A N G Q G R G - - - - - E R T N L N R L K G L A D G M V G N P Q G Q A A L L - R - - - - P G E L V A I T A S A L Q A F R E V A R L A - - - - - -
P V M H P H G A P P N H R P W Q M K D L Q A I K Q E V S Q A A P G S - - - P Q F M Q T I R L A V Q Q F D P T A K D L Q D L L Q Y L C S - S L V A S L H H Q Q L D S L I S E A E T R - - - - G - I T - - - - - - - - S Y N P L A G P L R V Q A N - - - - - - - - - - - N P Q Q - - - - - - - Q G L R R E Y Q Q L W L A A F A A L P G S A K D P S W A
P L R G G N G - Q L Q Y W P F S S S D L Y N W K N - - - N N P S F S E D P G K L T A L I E S V L T T H Q P T W D D C Q Q L L G T L L T - G E E K Q R V L L E A R K A V R G - - N D - - - - G R P T - - - - - - - - Q - L P N - - E V D A A F P L E R P D - - - - - W D Y T T - - - - Q R G R N H L V L Y R Q L L L A G Q N A G R - - - - - - - - -
- - - - - - - - - - - - - - - - P R G Y T T W V N T I Q T N G L L N - - - E A S Q N L F G I L S V - D - C T S E E M N A F L D V V P G Q A G Q K Q I L L D A I D K I A D D W D N R H P L P N A P L V A - - - - - P P Q G P I P M T A R F I R G L - - - - G V P R E R Q M E - - - - - P A F D Q F R Q T Y R Q W I I E A M S E G I K V M I G K - - -
P V Q H V G - G T Y T H I P L S P R T L N A W V K L V E E K K F - G - - - A E V V P G F Q A L S E - G - C T P Y D I N Q M L N C V G D H Q A A M Q I I R E I I N E E A A E W D V Q H P - - - - - - - - I P G P L P A G Q L R E P R G S D I A G T - - - - T S T V E E Q I Q W M F R P Q N P V P V G N I Y R R W I Q I G L Q K C V R M Y - - - - - -
P V V N R G - - G W A Y E P M S - T T V A A W I - Q T G E K G L T S - - - P E T I T Y W G L I S Q - D - L S S R E Q V Q L L E V V P G L Q A D K D M L G A Y L E E R A R E W D A Q - P Q - - - - - - - - - - - - - - - - P L P Y T S A H I R G L - - - - T G D Q A F A I S - - - - - A Q G R E A A Q V F R A W I T Q G L M N L A Q L A - - - - - -
P I M - - - - - - - - Y E P V G P G L I A A W L K Q V Q E H G L T H - - - P A T I T Y F G V I S I - N - F T S V D I N M L L N V T P G - - A E K Q L V I D K I K E K A I A W D E M H P P P - - P A D A - - - - - A - - G P V P L T S D Q I R G I - - - - G L S P - E A A G - - - - - P R F A D A R T L Y R T W V L E A L Q E C Q - - - - - - - - -
P I I S E G N - R N R H R A W A L R E L Q D I K K E I E N K A P G S - - - Q V W I Q T L R L A I L Q A D P T P A D L E Q L C Q Y I A S - P V D Q T A H M T S L T A A I A A A E A A - - - - N T L Q - - - - - - - - G F N P Q N G T L T Q Q S A - - - - - - - - - - - Q P N - - - - - - - A G D L R S Q Y Q N L W L Q A W K N L P T R - - - - - - -

 

 

 

 

 

Member Chain UniProtKB GO term
d1em9a_ A P03322 GO:0016032
d1g03a_ A P14077 GO:0016032
d1u7ka_ A P03336 GO:0016032
d1u7ka_ A P03336 GO:0019068
d2eiaa2 A P69732 GO:0016032
d2eiaa2 A P69732 GO:0016032
 
Contact: Prof. R. Sowdhamini - mini@ncbs.res.in