23 CF homology search in PDB

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>4IYB:A|PDBID|CHAIN|SEQUENCE

STQVSSGQTYKITNVKAGTVIDLSGEDNKSIIGYPYHSGKNQQWTFNWTGKAWTLRSASSGSYLGIEGTPADGTRLVAVNDPFEWHIWRDEANENAFRIFVPFTNYNLDLSGYGDTTPGTPVQLWWTWEGLHQTWTIDRP

Macrolepiota procera ricin B-like lectin (MPL) in complex with galactose

• DOI: 10.2210/pdb4iyb/pdb

• Classification: SUGAR BINDING PROTEIN
• Deposited: 2013-01-28 Released: 2013-11-20
• Deposition author(s): Renko, M., Zurga, S., Sabotic, J., Pohleven, J., Kos, J., Turk, D.
• Organism: Macrolepiota procera
• Expression System: Escherichia coli

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4IYB:A|PDBID|CHAIN|SEQUENCE

Sequence ID: Query_56515Length: 140Number of Matches: 2

Related Information

Range 1: 6 to 81GraphicsNext MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
19.6 bits(39)	0.017	Compositional matrix adjust.	22/81(27%)	37/81(45%)	9/81(11%)

Query  65   SKKCYKITHVATGKSMTSSEVFNATTKAKYATVSSNPPANFLWTMEPSYGGVNYIQNANT  124
            S + YKIT+V  G  +  S   N +          N    F WT     G    +++A++
Sbjct  6    SGQTYKITNVKAGTVIDLSGEDNKSIIGYPYHSGKNQQWTFNWT-----GKAWTLRSASS  60

Query  125  LEFLKAD---SNGTRL-ALNE  141
              +L  +   ++GTRL A+N+
Sbjct  61   GSYLGIEGTPADGTRLVAVND  81

Range 2: 102 to 106GraphicsNext MatchPrevious MatchFirst Match

Alignment statistics for match #2

Score	Expect	Method	Identities	Positives	Gaps
15.8 bits(29)	0.36	Compositional matrix adjust.	5/5(100%)	5/5(100%)	0/5(0%)

Query  190  PFTNY  194
            PFTNY
Sbjct  102  PFTNY  106

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>5E1H:A|PDBID|CHAIN|SEQUENCE QYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGY RAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTL ARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYD VSILIPIIALMVYRCAPP

5E1H:A|PDBID|CHAIN|SEQUENCE

Sequence ID: Query_94813Length: 258Number of Matches: 1

Related Information

Range 1: 186 to 222GraphicsNext MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
15.8 bits(29)	0.76	Compositional matrix adjust.	12/39(31%)	22/39(56%)	3/39(7%)

Query  90   TKAKYATVSSNPPANFLWTMEPSYGGVN-YIQNANTLEF  127
            T+ +Y   S+  P+  + T+E S+G ++  IQ +N   F
Sbjct  186  TRIRYNRRSAPDPS--VITLENSWGRLSTAIQESNQGAF  222

Ricin toxin in complex with neutralizing single chain monoclonal antibodies (VHHs)

Rudolph, M.J., Vance, D., Shoemaker, C., Mantis, N.

To Be Published



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>2AAI:A|PDBID|CHAIN|SEQUENCE
IFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF

Crystallographic refinement of ricin to 2.5 A.

Rutenber, E., Katzin, B.J., Ernst, S., Collins, E.J., Mlsna, D., Ready, M.P., Robertus, J.D.

(1991) Proteins 10: 240-250

• PubMed: 1881880 Search on PubMed
• DOI: 10.1002/prot.340100308

PubMed Abstract:

The plant cytotoxin ricin consists of two disulfide-linked chains, each of about 30,000 daltons. An initial model based on a 2.8 A MIR electron density map has been refined against 2.5 A data using rounds of hand rebuilding coupled with  

unnamed protein product

Sequence ID: Query_244321Length: 267Number of Matches: 1

Related Information

Range 1: 190 to 226GraphicsNext MatchPrevious Match

Alignment statistics for match #1

Score	Expect	Method	Identities	Positives	Gaps
15.8 bits(29)	0.83	Compositional matrix adjust.	12/39(31%)	22/39(56%)	3/39(7%)

Query  90   TKAKYATVSSNPPANFLWTMEPSYGGVN-YIQNANTLEF  127
            T+ +Y   S+  P+  + T+E S+G ++  IQ +N   F
Sbjct  190  TRIRYNRRSAPDPS--VITLENSWGRLSTAIQESNQGAF  226

Distribution of 1 Blast Hits on the Query Sequence 

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Color key for alignment scores

<40

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>=200

Query

1

40

80

120

160

200