BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 022777
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MKR|A Chain A, Crystal Structure Of Yeast AlphaEPSILON-Cop Subcomplex Of
The Copi Vesicular Coat
Length = 291
Score = 219 bits (558), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 116/283 (40%), Positives = 173/283 (61%), Gaps = 4/283 (1%)
Query: 8 DHLFNLRNNFYLGAYQAAINNSD-LTNLPPDDAVERDCLVYRSYIALGSYQLVISEIDES 66
D LF+++N FY+G+YQ IN + + P+ VERD +YR+Y+A Y +V+ EI S
Sbjct: 1 DELFDVKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS 60
Query: 67 AATPLQAVKLLALYLSSPDNKESTISSLKEWLSDPAIGSNATLRLIAGIIFMHEEDYNEA 126
+A LQAV++ A YL+S +++ ++ L +S +N T L+A I+ ++++ + A
Sbjct: 61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAA 120
Query: 127 LKHTNAGGTMELHALNVQIFLKMHRSDYAERQLRAMQQIDEDHTLTQLANAWLNLAVGGS 186
L+ + G ++E A+ VQI LK+ R D A ++L+ MQ DED TLTQLA AW++LA GG
Sbjct: 121 LRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGE 180
Query: 187 KIQEAYLIFQDFSEKYPMTGLILNGKAVCCMHMGNFDEAEGXXXXXXXXXXXXPETLANL 246
K+Q+AY IFQ+ ++K T L+LNG+A C M G ++ AEG PETL NL
Sbjct: 181 KLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL 240
Query: 247 VVCSLHQGKS---TSRYLNQLKLTHPDHMLVKRASSGDESFER 286
VV S H GK T+RYL+QLK H H +K + + F+R
Sbjct: 241 VVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYRAKENDFDR 283
>pdb|3MV3|B Chain B, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV3|D Chain D, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV3|F Chain F, Crystal Structure Of A-Cop In Complex With E-Cop
Length = 310
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 70/305 (22%), Positives = 112/305 (36%), Gaps = 42/305 (13%)
Query: 7 PDHLFNLRNNFYLGAYQAAINNSDLTNLPPDDAVERDCLVYR--SYIALGSYQLVISEID 64
P FN++ N+Y G + + + + D+ + L Y+ + +ALG YQ
Sbjct: 14 PXDYFNIKQNYYTGNFVQCLQEIEKFSKVTDNTL----LFYKAKTLLALGQYQ------- 62
Query: 65 ESAATPLQAV-KLLALYLSSPDNKESTISSLKEWLSDPAIGSN-----ATLRLIAGIIFM 118
+ P + K+L LY+ D K I L+ L D AT + I G +
Sbjct: 63 --SQDPTSKLGKVLDLYVQFLDTK--NIEELENLLKDKQNSPYELYLLATAQAILGDLDK 118
Query: 119 HEEDYNEALKHTNAGGTMELHALNVQIFLKMHRSDYAERQLRAMQQIDED------HTLT 172
E E + + A GT EL L +++ L + A ED +
Sbjct: 119 SLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEXIL 178
Query: 173 QLANAWLNLAVGGSKIQEAYLIFQDFSEKYPMTGLILNGKAVCCMHMGNFDEAEG----- 227
LA +++ A + +++ S+ +P L G + N EA+G
Sbjct: 179 NLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQL-GLLNLHLQQRNIAEAQGIVELL 237
Query: 228 -----XXXXXXXXXXXXPETLANLVVCSLHQGKSTSRYLNQL-KLTHPDHMLVKRASSGD 281
P LAN + +L QG T NQL KL H +H +K D
Sbjct: 238 LSDYYSVEQKENAVLYKPTFLANQITLALXQGLDTEDLTNQLVKLDH-EHAFIKHHQEID 296
Query: 282 ESFER 286
F+
Sbjct: 297 AKFDE 301
>pdb|3MV2|B Chain B, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV2|D Chain D, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV2|F Chain F, Crystal Structure Of A-Cop In Complex With E-Cop
Length = 310
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 70/308 (22%), Positives = 114/308 (37%), Gaps = 42/308 (13%)
Query: 7 PDHLFNLRNNFYLGAYQAAINNSDLTNLPPDDAVERDCLVYR--SYIALGSYQLVISEID 64
P FN++ N+Y G + + + + D+ + L Y+ + +ALG YQ
Sbjct: 14 PMDYFNIKQNYYTGNFVQCLQEIEKFSKVTDNTL----LFYKAKTLLALGQYQ------- 62
Query: 65 ESAATPLQAV-KLLALYLSSPDNKESTISSLKEWLSDPAIGSN-----ATLRLIAGIIFM 118
+ P + K+L LY+ D K I L+ L D AT + I G +
Sbjct: 63 --SQDPTSKLGKVLDLYVQFLDTK--NIEELENLLKDKQNSPYELYLLATAQAILGDLDK 118
Query: 119 HEEDYNEALKHTNAGGTMELHALNVQIFLKMHRSDYAERQLRAMQQIDED------HTLT 172
E E + + A GT EL L +++ L + A ED +
Sbjct: 119 SLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMIL 178
Query: 173 QLANAWLNLAVGGSKIQEAYLIFQDFSEKYPMTGLILNGKAVCCMHMGNFDEAEG----- 227
LA +++ A + +++ S+ +P L G + N EA+G
Sbjct: 179 NLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQL-GLLNLHLQQRNIAEAQGIVELL 237
Query: 228 -----XXXXXXXXXXXXPETLANLVVCSLHQGKSTSRYLNQL-KLTHPDHMLVKRASSGD 281
P LAN + +L QG T NQL KL H +H +K D
Sbjct: 238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGLDTEDLTNQLVKLDH-EHAFIKHHQEID 296
Query: 282 ESFERALQ 289
F+ ++
Sbjct: 297 AKFDELVR 304
>pdb|3U9U|A Chain A, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|C Chain C, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 224
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 44/107 (41%), Gaps = 6/107 (5%)
Query: 63 IDESAATPLQAVKLLALYLSSPDNKESTISSLKEWLSDPAIGSNATLRLIAGIIFMHEED 122
+ ES LQ + L+L S ST W+ P S L +A I + +
Sbjct: 4 LKESGPGILQPSQTLSLTCSFSGFSLSTYGIGVGWIRQP---SGKGLEWLAHIWWNDNKY 60
Query: 123 YNEALKHTNAGGTMELHALNVQIFLKMHRSDYAERQLRAMQQIDEDH 169
YN AL+ T+ N Q+FLK+ D A+ +I +DH
Sbjct: 61 YNIALRSRL---TISKDTSNNQVFLKIASVDTADTATYYCARIPDDH 104
>pdb|3K5W|A Chain A, Crystal Structure Of A Carbohydrate Kinase (Yjef
Family)from Helicobacter Pylori
Length = 475
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 194 IFQDFSEKYPMTGLILNGKAVCCMHMG 220
I +DFS+KYP L+L G H G
Sbjct: 370 IARDFSQKYPKVVLLLKGANTLIAHQG 396
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.131 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,043,785
Number of Sequences: 62578
Number of extensions: 291995
Number of successful extensions: 609
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 601
Number of HSP's gapped (non-prelim): 8
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)