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= 006763
(632 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 774 bits (1998), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 381/543 (70%), Positives = 452/543 (83%), Gaps = 3/543 (0%)
Query: 1 MTVGKDVSSLFTDVVNCMQTENLELKKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNP 60
MTVGKDVS+LF DVVNCMQT+NLELKKLVYLYL+NYAKSQPD+AI+AVNTFVKD +DPNP
Sbjct: 41 MTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNTFVKDCEDPNP 100
Query: 61 LIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVAKLYDINAELVEDRG 120
LIRALAVRTMGCIRVDKITEYLC+PL++CLKD+DPYVRKTAA+CVAKL+DINA++VED+G
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 121 FLESLKDLISDXX-XXXXXXXXXXXXXXXXXSSRPIFEITSHTLSKLLTALNECTEWGQV 179
FL++LKDLISD S + ++ + +++KLLTALNECTEW Q+
Sbjct: 161 FLDTLKDLISDSNPMVVANRVAALSEIAESHPSSNLLDLKAQSINKLLTALNECTEWAQI 220
Query: 180 FILDALSRYKAADAREAENIVERVTPRLQHANCAVVLSAVKMILQQMELITS-TDVVRNL 238
FILD L Y D REA++I ERVTPRL HAN AVVLSAVK++++ ME+++ D L
Sbjct: 221 FILDCLGNYMPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFMEMLSKDLDYYATL 280
Query: 239 CKKMAPPLVTLLSAEPEIQYVALRNINLIVQRRPTILAHEIKVFFCKYNDPIYVKMEKLE 298
KK+APPLVTLLSAEPE QYV LRNINLIVQ+RP IL HE+KVFF KYNDPIYVK+EKL+
Sbjct: 281 LKKLAPPLVTLLSAEPEPQYVPLRNINLIVQKRPEILKHEMKVFFVKYNDPIYVKLEKLD 340
Query: 299 IMIKLASDRNIDQVLLEFKEYATEVDVDFVRKAVRAIGRCAIKLERAAERCISVLLELIK 358
IMI+LAS NI QVL E KEYATEVDVDFVRKAVRAIGRCAIK+E++AERC+S LL+LI+
Sbjct: 341 IMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQ 400
Query: 359 IKVNYVVQEAIIVIKDIFRRYPNTYESIIATLCESLDTLDEPEAKASMIWIIGEYAERID 418
KVNYVVQEAI+VIKDIFR+YPN YES+IATLCE+LD+ DEPEA+A+MIWI+GEYAER D
Sbjct: 401 TKVNYVVQEAIVVIKDIFRKYPNKYESVIATLCENLDSDDEPEARAAMIWIVGEYAERSD 460
Query: 419 NADXXXXXXXXXXXXXXAQVQLQLLTATVKLFLKKPTEGPQQMIQVVLNNATVETDNPDL 478
NAD QVQLQLLTA VKLFLKKPTE Q+++Q VL+ AT ++DNPDL
Sbjct: 461 NADELLESFLDGFHDESTQVQLQLLTAIVKLFLKKPTET-QELVQQVLSLATQDSDNPDL 519
Query: 479 RDRAYIYWRLLSTDPEAAKDVVLAEKPVISDDSNQLDPSLLDELLANIATLSSVYHKPPE 538
RDR YIYWRLLSTDP AAK+VVLAEKP+IS++++ ++P+LLDEL+ I TL+SVYHKPP
Sbjct: 520 RDRGYIYWRLLSTDPVAAKEVVLAEKPLISEETDLIEPTLLDELICYIGTLASVYHKPPN 579
Query: 539 AFV 541
AFV
Sbjct: 580 AFV 582
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 773 bits (1997), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 379/545 (69%), Positives = 454/545 (83%), Gaps = 7/545 (1%)
Query: 1 MTVGKDVSSLFTDVVNCMQTENLELKKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNP 60
MTVGKDVSSLF DVVNCMQT+NLELKKLVYLYL+NYAKSQPD+AI+AVN+FVKD +DPNP
Sbjct: 41 MTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNP 100
Query: 61 LIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVAKLYDINAELVEDRG 120
LIRALAVRTMGCIRVDKITEYLC+PL++CLKD+DPYVRKTAA+CVAKL+DINA++VED+G
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 121 FLESLKDLISDXXXXXXXXXXXXXXXXXXXSSRP---IFEITSHTLSKLLTALNECTEWG 177
FL+SL+DLI+D S P + ++ ++KLLTALNECTEWG
Sbjct: 161 FLDSLRDLIADSNPMVVANAVAALSEIS--ESHPNSNLLDLNPQNINKLLTALNECTEWG 218
Query: 178 QVFILDALSRYKAADAREAENIVERVTPRLQHANCAVVLSAVKMILQQMELI-TSTDVVR 236
Q+FILD LS Y D REA++I ERVTPRL HAN AVVLSAVK++++ +EL+ +D
Sbjct: 219 QIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYN 278
Query: 237 NLCKKMAPPLVTLLSAEPEIQYVALRNINLIVQRRPTILAHEIKVFFCKYNDPIYVKMEK 296
L KK+APPLVTLLS EPE+QYVALRNINLIVQ+RP IL EIKVFF KYNDPIYVK+EK
Sbjct: 279 MLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEK 338
Query: 297 LEIMIKLASDRNIDQVLLEFKEYATEVDVDFVRKAVRAIGRCAIKLERAAERCISVLLEL 356
L+IMI+LAS NI QVL E KEYATEVDVDFVRKAVRAIGRCAIK+E++AERC+S LL+L
Sbjct: 339 LDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDL 398
Query: 357 IKIKVNYVVQEAIIVIKDIFRRYPNTYESIIATLCESLDTLDEPEAKASMIWIIGEYAER 416
I+ KVNYVVQEAI+VI+DIFR+YPN YESIIATLCE+LD+LDEP+A+A+MIWI+GEYAER
Sbjct: 399 IQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAER 458
Query: 417 IDNADXXXXXXXXXXXXXXAQVQLQLLTATVKLFLKKPTEGPQQMIQVVLNNATVETDNP 476
IDNAD QVQL LLTA VKLFLKKP+E Q+++Q VL+ AT ++DNP
Sbjct: 459 IDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSET-QELVQQVLSLATQDSDNP 517
Query: 477 DLRDRAYIYWRLLSTDPEAAKDVVLAEKPVISDDSNQLDPSLLDELLANIATLSSVYHKP 536
DLRDR YIYWRLLSTDP AK+VVL+EKP+IS++++ ++P+LLDEL+ +I +L+SVYHKP
Sbjct: 518 DLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLLDELICHIGSLASVYHKP 577
Query: 537 PEAFV 541
P AFV
Sbjct: 578 PNAFV 582
>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 = 773 bits (1997), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 379/545 (69%), Positives = 454/545 (83%), Gaps = 7/545 (1%)
Query: 1 MTVGKDVSSLFTDVVNCMQTENLELKKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNP 60
MTVGKDVSSLF DVVNCMQT+NLELKKLVYLYL+NYAKSQPD+AI+AVN+FVKD +DPNP
Sbjct: 41 MTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNP 100
Query: 61 LIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVAKLYDINAELVEDRG 120
LIRALAVRTMGCIRVDKITEYLC+PL++CLKD+DPYVRKTAA+CVAKL+DINA++VED+G
Sbjct: 101 LIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQG 160
Query: 121 FLESLKDLISDXXXXXXXXXXXXXXXXXXXSSRP---IFEITSHTLSKLLTALNECTEWG 177
FL+SL+DLI+D S P + ++ ++KLLTALNECTEWG
Sbjct: 161 FLDSLRDLIADSNPMVVANAVAALSEIS--ESHPNSNLLDLNPQNINKLLTALNECTEWG 218
Query: 178 QVFILDALSRYKAADAREAENIVERVTPRLQHANCAVVLSAVKMILQQMELI-TSTDVVR 236
Q+FILD LS Y D REA++I ERVTPRL HAN AVVLSAVK++++ +EL+ +D
Sbjct: 219 QIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYN 278
Query: 237 NLCKKMAPPLVTLLSAEPEIQYVALRNINLIVQRRPTILAHEIKVFFCKYNDPIYVKMEK 296
L KK+APPLVTLLS EPE+QYVALRNINLIVQ+RP IL EIKVFF KYNDPIYVK+EK
Sbjct: 279 MLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEK 338
Query: 297 LEIMIKLASDRNIDQVLLEFKEYATEVDVDFVRKAVRAIGRCAIKLERAAERCISVLLEL 356
L+IMI+LAS NI QVL E KEYATEVDVDFVRKAVRAIGRCAIK+E++AERC+S LL+L
Sbjct: 339 LDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDL 398
Query: 357 IKIKVNYVVQEAIIVIKDIFRRYPNTYESIIATLCESLDTLDEPEAKASMIWIIGEYAER 416
I+ KVNYVVQEAI+VI+DIFR+YPN YESIIATLCE+LD+LDEP+A+A+MIWI+GEYAER
Sbjct: 399 IQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAER 458
Query: 417 IDNADXXXXXXXXXXXXXXAQVQLQLLTATVKLFLKKPTEGPQQMIQVVLNNATVETDNP 476
IDNAD QVQL LLTA VKLFLKKP+E Q+++Q VL+ AT ++DNP
Sbjct: 459 IDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSET-QELVQQVLSLATQDSDNP 517
Query: 477 DLRDRAYIYWRLLSTDPEAAKDVVLAEKPVISDDSNQLDPSLLDELLANIATLSSVYHKP 536
DLRDR YIYWRLLSTDP AK+VVL+EKP+IS++++ ++P+LLDEL+ +I +L+SVYHKP
Sbjct: 518 DLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLLDELICHIGSLASVYHKP 577
Query: 537 PEAFV 541
P AFV
Sbjct: 578 PNAFV 582
>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
Length = 618
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 54/106 (50%), Gaps = 2/106 (1%)
Query: 26 KKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDP 85
K++ YL + + D+ +L N D ++ LA+ T+GC+ ++ L
Sbjct: 87 KRIGYLGAMLLLDERQDVHLLMTNCIKNDLNHSTQFVQGLALCTLGCMGSSEMCRDLAGE 146
Query: 86 LQRCLKDDDPYVRKTAAICVAKLYDINAELVEDRGFLESLKDLISD 131
+++ LK + Y+RK AA+C + EL+E FL + K+L+++
Sbjct: 147 VEKLLKTSNSYLRKKAALCAVHVIRKVPELME--MFLPATKNLLNE 190
>pdb|2JKR|A Chain A, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|L Chain L, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|A Chain A, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|L Chain L, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 623
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 88/458 (19%), Positives = 168/458 (36%), Gaps = 57/458 (12%)
Query: 3 VGKDVSSLFTDVVNCMQTENLELKKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNPLI 62
+G D+ + VN + + K++ YL++ S +L L N D NP
Sbjct: 68 LGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTF 127
Query: 63 RALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPY--VRKTAAICVAKLYDINAELVEDRG 120
LA+ + + ++ E + + L D V+++AA+C+ +LY + +LV
Sbjct: 128 MGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGD 187
Query: 121 FLESLKDLISDXXXXXXXXXXXXXXXXXXXSSRPIFEITSHTLSKLLTALNECTE----- 175
+ + L++D + S +S+L + +
Sbjct: 188 WTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDY 247
Query: 176 --------WGQVFILDALSRY-----KAADAREA---ENIVERV-----TPRLQHANC-- 212
W V +L L Y A R E I+ + + ++QH+N
Sbjct: 248 TYYFVPAPWLSVKLLRLLQCYPPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKN 307
Query: 213 AVVLSAVKMILQQMELITSTDVVRNLCKKMAPPLVTLLSA-EPEIQYVALRNINLIVQ-- 269
AV+ A+ +I+ D NL + L L E ++Y+AL ++ +
Sbjct: 308 AVLFEAISLIIHH-------DSEPNLLVRACNQLGQFLQHRETNLRYLALESMCTLASSE 360
Query: 270 -RRPTILAH-EIKVFFCKYNDPIYVKMEKLEIMIKLASDRNIDQVLLEFKEYATEVDVDF 327
+ H E + K + V+ ++++ + N Q++ E Y D
Sbjct: 361 FSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSI 420
Query: 328 VRKAVRAIGRCAIKLERAAERCISVLLELIKIKVNYVVQEA------IIVIKDIFRRYP- 380
+ V + A K + +L LI+I +YV +E I++ +D + Y
Sbjct: 421 REEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGDYVSEEVWYRVIQIVINRDDVQGYAA 480
Query: 381 -NTYESIIATLCESLDTLDEPEAKASMIWIIGEYAERI 417
+E++ A C E K +I+GE+ I
Sbjct: 481 KTVFEALQAPACH------ENLVKVGG-YILGEFGNLI 511
>pdb|2VGL|A Chain A, Ap2 Clathrin Adaptor Core
pdb|2XA7|A Chain A, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 621
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 88/458 (19%), Positives = 168/458 (36%), Gaps = 57/458 (12%)
Query: 3 VGKDVSSLFTDVVNCMQTENLELKKLVYLYLINYAKSQPDLAILAVNTFVKDSQDPNPLI 62
+G D+ + VN + + K++ YL++ S +L L N D NP
Sbjct: 68 LGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTF 127
Query: 63 RALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPY--VRKTAAICVAKLYDINAELVEDRG 120
LA+ + + ++ E + + L D V+++AA+C+ +LY + +LV
Sbjct: 128 MGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGD 187
Query: 121 FLESLKDLISDXXXXXXXXXXXXXXXXXXXSSRPIFEITSHTLSKLLTALNECTE----- 175
+ + L++D + S +S+L + +
Sbjct: 188 WTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDY 247
Query: 176 --------WGQVFILDALSRY-----KAADAREA---ENIVERV-----TPRLQHANC-- 212
W V +L L Y A R E I+ + + ++QH+N
Sbjct: 248 TYYFVPAPWLSVKLLRLLQCYPPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKN 307
Query: 213 AVVLSAVKMILQQMELITSTDVVRNLCKKMAPPLVTLLSA-EPEIQYVALRNINLIVQ-- 269
AV+ A+ +I+ D NL + L L E ++Y+AL ++ +
Sbjct: 308 AVLFEAISLIIHH-------DSEPNLLVRACNQLGQFLQHRETNLRYLALESMCTLASSE 360
Query: 270 -RRPTILAH-EIKVFFCKYNDPIYVKMEKLEIMIKLASDRNIDQVLLEFKEYATEVDVDF 327
+ H E + K + V+ ++++ + N Q++ E Y D
Sbjct: 361 FSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSI 420
Query: 328 VRKAVRAIGRCAIKLERAAERCISVLLELIKIKVNYVVQEA------IIVIKDIFRRYP- 380
+ V + A K + +L LI+I +YV +E I++ +D + Y
Sbjct: 421 REEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGDYVSEEVWYRVIQIVINRDDVQGYAA 480
Query: 381 -NTYESIIATLCESLDTLDEPEAKASMIWIIGEYAERI 417
+E++ A C E K +I+GE+ I
Sbjct: 481 KTVFEALQAPACH------ENLVKVGG-YILGEFGNLI 511
>pdb|3LTJ|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 201
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 4/67 (5%)
Query: 47 AVNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVA 106
AV +K +D + +R A +G I ++ E PL + LKD+D +VR++AA+ +
Sbjct: 46 AVEPLIKALKDEDAWVRRAAADALGQIGDERAVE----PLIKALKDEDGWVRQSAAVALG 101
Query: 107 KLYDINA 113
++ D A
Sbjct: 102 QIGDERA 108
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 48 VNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVAK 107
V ++K+ QD + +R A +G I ++ E PL + LKD+D +VR+ AA + +
Sbjct: 16 VEMYIKNLQDDSYYVRRAAAYALGKIGDERAVE----PLIKALKDEDAWVRRAAADALGQ 71
Query: 108 LYDINA 113
+ D A
Sbjct: 72 IGDERA 77
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 9/79 (11%)
Query: 47 AVNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVA 106
AV +K +D + +R A +G I ++ E PL + LKD+D +VR++AA
Sbjct: 108 AVEPLIKALKDEDWFVRIAAAFALGEIGDERAVE----PLIKALKDEDGWVRQSAADA-- 161
Query: 107 KLYDINAELVEDRGFLESL 125
L +I E V R +E L
Sbjct: 162 -LGEIGGERV--RAAMEKL 177
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 52 VKDSQDPNPLIRALA-----VRTMGCIRVDKIT-EYLCDPLQRCLKDDDPYVRKTAAICV 105
+ D + PLI+AL VR + + +I E +PL + LKD+D +VR AA +
Sbjct: 72 IGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFAL 131
Query: 106 AKLYDINA 113
++ D A
Sbjct: 132 GEIGDERA 139
>pdb|3LTM|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
pdb|3LTM|B Chain B, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 211
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 4/67 (5%)
Query: 47 AVNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVA 106
AV +K +D + +R A +G I ++ E PL + LKD+D +VR++AA+ +
Sbjct: 51 AVEPLIKALKDEDAWVRRAAADALGQIGDERAVE----PLIKALKDEDGWVRQSAAVALG 106
Query: 107 KLYDINA 113
++ D A
Sbjct: 107 QIGDERA 113
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 48 VNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVAK 107
V ++K+ QD + +R A +G I ++ E PL + LKD+D +VR+ AA + +
Sbjct: 21 VEMYIKNLQDDSYYVRRAAAYALGKIGDERAVE----PLIKALKDEDAWVRRAAADALGQ 76
Query: 108 LYDINA 113
+ D A
Sbjct: 77 IGDERA 82
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 9/79 (11%)
Query: 47 AVNTFVKDSQDPNPLIRALAVRTMGCIRVDKITEYLCDPLQRCLKDDDPYVRKTAAICVA 106
AV +K +D + +R A +G I ++ E PL + LKD+D +VR++AA
Sbjct: 113 AVEPLIKALKDEDWFVRIAAAFALGEIGDERAVE----PLIKALKDEDGWVRQSAADA-- 166
Query: 107 KLYDINAELVEDRGFLESL 125
L +I E V R +E L
Sbjct: 167 -LGEIGGERV--RAAMEKL 182
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 52 VKDSQDPNPLIRALA-----VRTMGCIRVDKIT-EYLCDPLQRCLKDDDPYVRKTAAICV 105
+ D + PLI+AL VR + + +I E +PL + LKD+D +VR AA +
Sbjct: 77 IGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFAL 136
Query: 106 AKLYDINA 113
++ D A
Sbjct: 137 GEIGDERA 144
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
0.318 0.134 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,266,774
Number of Sequences: 62578
Number of extensions: 536850
Number of successful extensions: 1188
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1161
Number of HSP's gapped (non-prelim): 14
length of query: 632
length of database: 14,973,337
effective HSP length: 105
effective length of query: 527
effective length of database: 8,402,647
effective search space: 4428194969
effective search space used: 4428194969
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)