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= psy8267
(645 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 591
Score = 188 bits (477), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 131/463 (28%), Positives = 207/463 (44%), Gaps = 62/463 (13%)
Query: 10 MAKGRDASDLFPAVVKNVVSKNIEVKKLVYVYLARYAEEQQDLALLSISTFQRALKDPNQ 69
M G+D S LFP VV + + N+E+KKLVY+YL YA+ Q D+A++++++F + +DPN
Sbjct: 41 MTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNP 100
Query: 70 LIRASALRVLSSIRVPMIIPIVMLAIKDSSLDMSPYVRKTAAHAIPKLYSLDPXXXXXX- 128
LIRA A+R + IRV I + ++ D PYVRKTAA + KL+ ++
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 129 -XXXXXXXXXDKTTLVVGSAVMAFEEVCPER-----IDMIHKSYRKLCNLLVDVDEWGQV 182
D +VV +AV A E+ +D+ ++ KL L + EWGQ+
Sbjct: 161 FLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQI 220
Query: 183 FILNMLTRYARTQFTXXXXXXXXXXXXXXXXXXXXXXXFYDDETTRDTKNETSQVSTELD 242
FIL+ L+ Y +D + S
Sbjct: 221 FILDCLSNY----------------------------------NPKDDREAQS------- 239
Query: 243 PDHRLLLKNAKPLLQSRNAAVVMAVAQL---FHHLAPRRE------VAIIAKALVRLLRS 293
+ + P L N+AVV++ ++ F L P+ + +A LV LL
Sbjct: 240 -----ICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSG 294
Query: 294 SREVQTVVLTTIASLAVKRRALFVPYLKSFYVRSSDPTHVXXXXXXXXXXXXXXXXXXXX 353
EVQ V L I + KR + +K F+V+ +DP +V
Sbjct: 295 EPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQV 354
Query: 354 LREFQTYISSVDKAFVAATVQAIGKCAANIAQVTDTCLTGLVSLLSYXXXXXXXXXXXXI 413
L E + Y + VD FV V+AIG+CA + Q + C++ L+ L+ I
Sbjct: 355 LAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVI 414
Query: 414 KNLLQTQPEAYTDIIRHMVRLSDSITVPTARAAILWLLGEYSH 456
+++ + P Y II + DS+ P ARAA++W++GEY+
Sbjct: 415 RDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAE 457
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 187 bits (476), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 131/465 (28%), Positives = 208/465 (44%), Gaps = 62/465 (13%)
Query: 10 MAKGRDASDLFPAVVKNVVSKNIEVKKLVYVYLARYAEEQQDLALLSISTFQRALKDPNQ 69
M G+D S LFP VV + + N+E+KKLVY+YL YA+ Q D+A++++++F + +DPN
Sbjct: 41 MTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNP 100
Query: 70 LIRASALRVLSSIRVPMIIPIVMLAIKDSSLDMSPYVRKTAAHAIPKLYSLDPXXXXXX- 128
LIRA A+R + IRV I + ++ D PYVRKTAA + KL+ ++
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 129 -XXXXXXXXXDKTTLVVGSAVMAFEEVCPER-----IDMIHKSYRKLCNLLVDVDEWGQV 182
D +VV +AV A E+ +D+ ++ KL L + EWGQ+
Sbjct: 161 FLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQI 220
Query: 183 FILNMLTRYARTQFTXXXXXXXXXXXXXXXXXXXXXXXFYDDETTRDTKNETSQVSTELD 242
FIL+ L+ Y +D + S
Sbjct: 221 FILDCLSNY----------------------------------NPKDDREAQS------- 239
Query: 243 PDHRLLLKNAKPLLQSRNAAVVMAVAQL---FHHLAPRRE------VAIIAKALVRLLRS 293
+ + P L N+AVV++ ++ F L P+ + +A LV LL
Sbjct: 240 -----ICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSG 294
Query: 294 SREVQTVVLTTIASLAVKRRALFVPYLKSFYVRSSDPTHVXXXXXXXXXXXXXXXXXXXX 353
EVQ V L I + KR + +K F+V+ +DP +V
Sbjct: 295 EPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQV 354
Query: 354 LREFQTYISSVDKAFVAATVQAIGKCAANIAQVTDTCLTGLVSLLSYXXXXXXXXXXXXI 413
L E + Y + VD FV V+AIG+CA + Q + C++ L+ L+ I
Sbjct: 355 LAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVI 414
Query: 414 KNLLQTQPEAYTDIIRHMVRLSDSITVPTARAAILWLLGEYSHLV 458
+++ + P Y II + DS+ P ARAA++W++GEY+ +
Sbjct: 415 RDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERI 459
>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
Length = 584
Score = 175 bits (443), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 134/492 (27%), Positives = 211/492 (42%), Gaps = 63/492 (12%)
Query: 10 MAKGRDASDLFPAVVKNVVSKNIEVKKLVYVYLARYAEEQQDLALLSISTFQRALKDPNQ 69
M G+D S LFP VV + + N+E+KKLVY+YL YA+ Q D+A+++++TF + +DPN
Sbjct: 41 MTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNTFVKDCEDPNP 100
Query: 70 LIRASALRVLSSIRVPMIIPIVMLAIKDSSLDMSPYVRKTAAHAIPKLYSLDPXXXXXX- 128
LIRA A+R + IRV I + ++ D PYVRKTAA + KL+ ++
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 129 -XXXXXXXXXDKTTLVVGSAVMAFEEVCPER-----IDMIHKSYRKLCNLLVDVDEWGQV 182
D +VV + V A E+ +D+ +S KL L + EW Q+
Sbjct: 161 FLDTLKDLISDSNPMVVANRVAALSEIAESHPSSNLLDLKAQSINKLLTALNECTEWAQI 220
Query: 183 FILNMLTRYARTQFTXXXXXXXXXXXXXXXXXXXXXXXFYDDETTRDTKNETSQVSTELD 242
FIL+ L Y +D + S
Sbjct: 221 FILDCLGNY----------------------------------MPKDDREAQS------- 239
Query: 243 PDHRLLLKNAKPLLQSRNAAVVMAVAQLFHHLAPRREVAI---------IAKALVRLLRS 293
+ + P L N+AVV++ ++ + +A LV LL +
Sbjct: 240 -----ICERVTPRLSHANSAVVLSAVKVLMKFMEMLSKDLDYYATLLKKLAPPLVTLLSA 294
Query: 294 SREVQTVVLTTIASLAVKRRALFVPYLKSFYVRSSDPTHVXXXXXXXXXXXXXXXXXXXX 353
E Q V L I + KR + +K F+V+ +DP +V
Sbjct: 295 EPEPQYVPLRNINLIVQKRPEILKHEMKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQV 354
Query: 354 LREFQTYISSVDKAFVAATVQAIGKCAANIAQVTDTCLTGLVSLLSYXXXXXXXXXXXXI 413
L E + Y + VD FV V+AIG+CA + Q + C++ L+ L+ I
Sbjct: 355 LAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVI 414
Query: 414 KNLLQTQPEAYTDIIRHMVRLSDSITVPTARAAILWLLGEYSHLVPALGPDVLRKAAITF 473
K++ + P Y +I + DS P ARAA++W++GEY+ ++L F
Sbjct: 415 KDIFRKYPNKYESVIATLCENLDSDDEPEARAAMIWIVGEYAERSDN-ADELLESFLDGF 473
Query: 474 VNEEDIVKLQVL 485
+E V+LQ+L
Sbjct: 474 HDESTQVQLQLL 485
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
0.320 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,611,435
Number of Sequences: 62578
Number of extensions: 491057
Number of successful extensions: 990
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 978
Number of HSP's gapped (non-prelim): 8
length of query: 645
length of database: 14,973,337
effective HSP length: 105
effective length of query: 540
effective length of database: 8,402,647
effective search space: 4537429380
effective search space used: 4537429380
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)