A. ClustalW2 alignment of spicule matrix C-type lectin-like domains
00826:
00827:
00825:
04867:
04869:
00828:
00164:
18811:
18810:
05991:
05989:
05990:
05992
11163:
18813:
PM27
13825:
27906:
SM30-B
SM30-C
SM30-A
SM30-E
SM30-F
SM30-D
Sp-Clect
SM50
SM32
Sp-Clect_14
Sp-Clect_13
SM29
Sp-Clect_76
Sp-C-lectin/PMC1
15
15
27
28
101
17
12
16
67
12
16
TRTEACAKFWVQ--EGNSCYLFDSGAFLRQ--------------------------VAAS
TRTEVCAKFWVQ--EGNSCYLFDSGAFLRQ--------------------------VAAS
KRTETCAKFWVH--EGNSCYLFDSGAFLRQ--------------------------VTAS
NRKERCAKFWME--EGNSCYLFDSGAFLRR--------------------------VAAN
NGPGKCRPKWTE--YKGHCYLYSSGAVEQV--------------------------GNPV
PTAISCPELWIQ--HKGSCYRMESGASSQMR-------------------------FGAT
-----------------------------------------------------------ATGQDCPAYYVRSQSGQSCYR--------------------------------------ATGQDCPAYYVRSQSGQSCYR--------------------------------------YPMEGCIPGWTN--FGKYCYK--------------------------------------YPLQGCQPGWTN--FGKFCYKPPQEKAESSSPKISPHTAHEPELKGGRAPWGKVTKVQIY
APLAGCLPGWTN--FGNFCYK--------------------------------------ALAVTCPAGWAT--FGYSCYK--------------------------------------LAVTACPFGWSQ--SGRSCYK--------------------------------------AVQAQCPPSWVK--VENSCYR--------------------------------------VGGSKCKGGWFL--IGQQCFK--------------------------------------YSLRVCIPRISH-----------------------------------------------SALPQCPEGWTY--SLKKCYK---------------------------------------
00826:
00827:
00825:
04867:
04869:
00828:
00164:
18811:
SM30-B
SM30-C
SM30-A
SM30-E
SM30-F
SM30-D
Sp-Clect
SM50
77
77
93
323
154
151
14
36
RPVVVNNENGLFQAAANMYCGQMHPNAS-------------LVTVNSLAENNFLYEWAVR
RPVVVNNQDGLFQAAANMYCGQMHPNAS-------------LVTVNSLAENNFLYEWAVR
GPLIVNNENGLFQAAANMYCGQMHPGAN-------------LVTVNSLTENNFLYEWAVR
APIVVNNQDGLFQAAANTYCSQMHPNAS-------------LVTVNSLAENNLLYEWAVR
THLGVNAQEGKTQDAANLFCASQQIGAT-------------LVTLNDVEENDFLYSWAVD
GPTFYGYNEGLTQASANSYCGVLQPGSS-------------LVTVNTLEENNFLYKWVVG
-----IRLEGMPFAQANLFCGQCHPGAH-------------LVVISDAAEHEFLYNNFYG
-----YFNMRVPYRMASEFCEMVTPCGN----GPAKMGALASVSSPQENMEIYQLVAGFS
Sp-Clect_25
SM37
45
45
61
291
122
118
18810:
05991:
05989:
05990:
05992
11163:
18813:
PM27
13825:
27906:
SM32
Sp-Clect_14
Sp-Clect_13
SM29
36
46
86
120
Sp-Clect_25
SM37
31
35
86
24
35
-----YFNIPLAYQWASEFCEMVTPCGN----GPAVMGTLAAPKSPQENMEIYRLVASFS
-----FFNQRMNWLQAQRECNKYSALNG--------TTPRGYLMTSKDQQHNNFQHNWLR
VQEARYFYERLPFMEAQMQCLSFRASP---------LAPRGYLITAKDQTHNRFQHNFLT
-----YIWQRLPYDEANMFCARFSAQAVPGQRPGFGMPPRGHLIVTKDMMHNKFQHNWLR
----------------------------------------------------------------VSQMAATYEQAAMLCSQQSSCETG---------FGGHLVSITTDFEKQQVTDILN
-----AFGQLKTYDMASQSCKTFTGCDG--------ISPGHLAAPTTFEERRAVRKIRFD
-----MMSRALKWNDAELMCEQNAPCGTP--------VLGGVMTIPDIQTSNAVINHLKS
-------RIRMTFNEATFFCNRYGGSLY---------------ALDSPSKNRIMLSYLTT
-----FFPMPLIKEEATVACTEAPNVIGG--------KLLDIADFDSFRFVKNLYTHTLP
00826:
00827:
00825:
04867:
04869:
00828:
00164:
18811:
18810:
05991:
05989:
05990:
05992
11163:
18813:
PM27
13825:
27906:
SM30-B
SM30-C
SM30-A
SM30-E
SM30-F
SM30-D
Sp-Clect
SM50
SM32
Sp-Clect_14
Sp-Clect_13
SM29
124
124
140
370
201
198
56
87
87
93
137
175
36
77
82
133
62
82
MMVE-------------PEPVWIGLHAG---PMG-QWQWYSG-EPVTYTN------WERM
MMVE-------------PEPVWIGLHAG---PTG-LWQWYSG-EPVTYTN------WERM
MMVE-------------PVPVWIGLHVG---PTG-LWQWYSG-EPVTYTN------WEGM
MMVE-------------PVPVWIGLHVG---PMG-RWQWYSG-EPVNYTN------WEGF
MMVE-------------PVPVWIGLHAHPT-PTGYVWQWFDEKEPVLFTN------WDRP
MLGHN------------ARPVWIGLHVG---PTG-LMQWYSG-ETSAYTN------WEEI
FEPT---------------EVWVGLFFN---STTLAWEWVNG-EPALNVP------WEPF
QDNQM------------ENEVWLGWNSQ------SPFFWEDG-TPAYPNG---FAAFSSS
QDNQM------------EREVWLGWNSM------NPFMWENG-APAYPHG---FSAFDSG
YTGGG------------LNKVWLGLSEK----TNNNYFWADG-TPLLPTQ---WNKWKID
FTGGA------------NNKVWMGLAER----QYNVFWWADG-TPFRPHD---WNLFKPD
YTGGG------------ANKIWMGLAELPSAPESNRYFWADG-TEFFFTRNFVFNRFKPD
------------------------------------YQWIDH-TPVAYTN------WKVD
FNQMA------------RNETWLGLRTYN-----GPLRWASG-EPLNPALTN---PWHPG
LLRPIGGNRIGEGQRLRPSNVWMGFRLGQG--ANSSWDSTEQYDNLLLDQ-----HWGPN
LSSTAMA---------IDIPFWTGLHNKWN----ALLERYEG--WKWPAG------WSTT
VFGQG-----------RRQKFWTGFYKAEN---ALGWRWSTG-STSQYTD------WEAG
FYQP-------------PTGQQLDFIPP------EKAIWTALAFDWNLEQ------WTTG
Sp-Clect_76
Sp-C-lectin/PMC1
Sp-Clect_25
SM37
Sp-Clect_76
Sp-C-lectin/PMC1
00826:
00827:
00825:
04867:
04869:
00828:
00164:
18811:
18810:
05991:
05989:
05990:
05992
11163:
18813:
PM27
13825:
27906:
SM30-B
SM30-C
SM30-A
SM30-E
SM30-F
SM30-D
Sp-Clect
SM50
SM32
Sp-Clect_14
Sp-Clect_13
SM29
00826:
00827:
00825:
04867:
04869:
00828:
00164:
18811:
18810:
05991:
05989:
05990:
05992
SM30-B
SM30-C
SM30-A
SM30-E
SM30-F
SM30-D
Sp-Clect
SM50
SM32
Sp-Clect_14
Sp-Clect_13
SM29
Sp-Clect_25
SM37
Sp-Clect_76
Sp-C-lectin/PMC1
160
160
176
406
241
235
91
125
133
177
222
53
116
135
238
101
117
196
196
281
442
276
266
128
185
158
202
247
78
T-APMAEPGLGAMIFDADIIAQMFNNQVEITP-----------------------QWVPE
T-APIAEPGLGAMIFDADIIAQMFNNQVEITP-----------------------QWVPE
R-VPQAEPGLGAMIFDAEIANQVFNNQVEIAP-----------------------QWVPE
R-APMAEPGLGAMIFDADIINQIFNNQVEITP-----------------------QWVPE
P-APVARAGLGAVLFDADLT-VVPPNAIEISG-----------------------KWLPV
P-EPFD----GATMFDVQPNNQMNN-QVDLTS-----------------------QWSRE
YGEPLVTHQGAAMMYVSEVIDQQTTLKYGYGI-----------------------EVSDY
PASPPRPGMPPTRSWPVNPQNPMSGPPGRAPVMKRQNPPVRPGQGGRQIPQGVGPQWEAV
-----------------------------------------------------------Q---------PQLNAHIQGVHTFDNMVDMT--------------------------WVTS
Q---------PQQNHHIDGVFTFDNYPYQT--------------------------WVTS
Q---------PQQNAHRQAVHSFNNRPDNS--------------------------WVTT
Q---------PQLNWHRQAAHIFNGRELQT--------------------------WVTS
N----------PMRGPNMCTVSFQN------------------------------RWATR
R--PNMPGQRPQAQAFDPTNFRWNGRCMTLPG--------------QMQMNGAVQKWGHI
Q---------QPLRFVNWAPREPNNQLLDQQH-----------------------SYCAR
K---------PATTNEAIGAVAWGGTHHWSDT------------------------WQDE
T----TGTTGTPGTTPAEPFYRFNNFNSQPIG-------------------------KPP
QAI---NDRHALICEYHPS
QAI---NDRHALICEYHPS
EAI---NDRHSIICEYHPS
QGR---NEPHALICEYHPQ
EGLGPQAEPLGLICEYSLH
DPY----NERMFICEHRPR
LVSELGEEPLPFICEYSLN
EVT----AMRAFVCEVPAG
------------------FYK----TEMSFICQYQYM
SHE----TQMSFTCQYQYL
SVE----TEVSFICQYQYK
NWR----TPMSYVCKLRFG
11163:
18813:
PM27
13825:
27906:
Sp-Clect_25
SM37
Sp-Clect_76
Sp-C-lectin/PMC1
136
179
200
128
148
NCN----MRRQFICEMGGS
ACN----MQAAYMCEISPA
MNRMG--QWYVVRCDEPMY
PLS----ASFAFICQAPAL
AEP-----LELLSCTVYPA
----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
This
alignment
was
done
with
ClustalW2
as
provided
by the
European
Informatics
Institute
(EBI)
available
at
http://www.ebi.ac.uk/Tools/clustalw2/index.html with default settings. The most similar pair is on top. C-type lectin-like domains
(CTLLD) were predicted using InterProScan (http://www.ebi.ac.uk/Tools/InterProScan/). The sequences were chosen to start five amino
acids in front of the first Cys and to stop five amino acids after the last Cys of the typical 4-Cys motif. If sequences contained an
incomplete motif, only residues predicted to belong to the CTLLD were used. Red, hydrophobic residues A, V, F, P, M, I, L, W; blue,
acidic amino acids D and E; magenta, basic amino acids K and R; green, hydrophilic amino acids S, T, Y, H, C, N, G, Q. Conserved
cysteines identified as part of the CTLLD are shaded yellow. The clustalW2 dnd file was used to produce the cladogram shown below.
B. Tree representation of sea urchin skeletal matrix C-type lectin-like domain alignment
---------------------------------------------------------------------------------------------------------------------------------------------------------------------The dnd file of clustalW2 was fed into the treeview program (http://taxonomy.zoology.gla.ac.uk/rod/treeview.html), described in Page
RDM: TREEVIEW: An application to display phylogenetic trees on personal computers. Computer Applications in the Biosciences
1996, 12:357-358, to produce this rectangular cladogram. Branch lengths are proportional to inferred evolutionary change.