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= psy8222
(198 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JOC|A Chain A, Eea1 Homodimer Of C-Terminal Fyve Domain Bound To Inositol
1,3-Diphosphate
pdb|1JOC|B Chain B, Eea1 Homodimer Of C-Terminal Fyve Domain Bound To Inositol
1,3-Diphosphate
Length = 125
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/64 (51%), Positives = 41/64 (64%), Gaps = 2/64 (3%)
Query: 56 WIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTCY 115
W DNE CM C + F+V RRHHCR+CG++ CA CS K L PS S KP+RVC C+
Sbjct: 63 WAEDNEVQNCMACGKG-FSVTVRRHHCRQCGNIFCAECSAKNALTPS-SKKPVRVCDACF 120
Query: 116 DVLS 119
+ L
Sbjct: 121 NDLQ 124
>pdb|1HYI|A Chain A, Solution Structure Of The Eea1 Fyve Domain Complexed With
Inositol 1,3-Bisphosphate
pdb|1HYJ|A Chain A, Solution Structure Of The Eea1 Fyve Domain
Length = 65
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/63 (52%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 56 WIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTCY 115
W DNE CM C + F+V RRHHCR+CG++ CA CS K L PS S KP+RVC C+
Sbjct: 3 WAEDNEVQNCMACGKG-FSVTVRRHHCRQCGNIFCAECSAKNALTPS-SKKPVRVCDACF 60
Query: 116 DVL 118
+ L
Sbjct: 61 NDL 63
>pdb|3T7L|A Chain A, Crystal Structure Of The Fyve Domain Of Endofin (Zfyve16)
At 1.1a Resolution
Length = 90
Score = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 41/65 (63%), Gaps = 2/65 (3%)
Query: 56 WIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTCY 115
W+PD+EA CM+C+ +FT RRHHCR CG V C C N++ L K RVC+ CY
Sbjct: 14 WVPDSEAPNCMNCQ-VKFTFTKRRHHCRACGKVFCGVCCNRKCKL-QYLEKEARVCVVCY 71
Query: 116 DVLSR 120
+ +S+
Sbjct: 72 ETISK 76
>pdb|2YQM|A Chain A, Solution Structure Of The Fyve Domain In Zinc Finger Fyve
Domain-Containing Protein 12
Length = 89
Score = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 41/64 (64%), Gaps = 2/64 (3%)
Query: 55 VWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTC 114
W+ D+EA C C++ +F++ R+HHCR CG + C CS+ LPS KP+RVC +C
Sbjct: 19 AWLKDDEATHCRQCEK-EFSISRRKHHCRNCGHIFCNTCSSNELALPSY-PKPVRVCDSC 76
Query: 115 YDVL 118
+ +L
Sbjct: 77 HTLL 80
>pdb|3ZYQ|A Chain A, Crystal Structure Of The Tandem Vhs And Fyve Domains Of
Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) At 1.48 A Resolution
pdb|4AVX|A Chain A, Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) Bound To An Ip2 Compound At 1.68 A
Resolution
Length = 226
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 45/81 (55%), Gaps = 5/81 (6%)
Query: 41 LRKSGKKPAATHAAVWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLL 100
++S AA A W+ +A C C R QF V++R+HHCR CG + C CS+K +
Sbjct: 146 FKESDAMFAAERAPDWV---DAEECHRC-RVQFGVMTRKHHCRACGQIFCGKCSSKYSTI 201
Query: 101 PSQS-AKPLRVCLTCYDVLSR 120
P K +RVC CY+ L+R
Sbjct: 202 PKFGIEKEVRVCEPCYEQLNR 222
>pdb|2YW8|A Chain A, Crystal Structure Of Human Run And Fyve Domain-Containing
Protein
Length = 82
Score = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 56 WIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTCY 115
W+ D+EA C C++ +F++ R+HHCR CG + C CS+ LPS KP+RVC +C+
Sbjct: 13 WLKDDEATHCRQCEK-EFSISRRKHHCRNCGHIFCNTCSSNELALPSY-PKPVRVCDSCH 70
Query: 116 DVL 118
+L
Sbjct: 71 TLL 73
>pdb|1Z2Q|A Chain A, High-Resolution Solution Structure Of The Lm5-1 Fyve
Domain From Leishmania Major
Length = 84
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 37/74 (50%), Gaps = 3/74 (4%)
Query: 54 AVWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQS-AKPLRVCL 112
W D +A C C FT RRHHCR CG V+C CS R +P + +P RVC
Sbjct: 13 GYWQEDEDAPACNGCG-CVFTTTVRRHHCRNCGYVLCGDCSRHRAAIPMRGITEPERVCD 71
Query: 113 TCYDVLSRDKTVSG 126
CY L R ++G
Sbjct: 72 ACYLAL-RSSNMAG 84
>pdb|1DVP|A Chain A, Crystal Structure Of The Vhs And Fyve Tandem Domains Of
Hrs, A Protein Involved In Membrane Trafficking And
Signal Transduction
Length = 220
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/81 (38%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 41 LRKSGKKPAATHAAVWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLL 100
LR++ A A W + VC C R +FT +R+HHCR CG V C C+ K+ L
Sbjct: 143 LREADAMFTADTAPNWA---DGRVCHRC-RVEFTFTNRKHHCRNCGQVFCGQCTAKQCPL 198
Query: 101 PSQS-AKPLRVCLTCYDVLSR 120
P K +RVC C+ L R
Sbjct: 199 PKYGIEKEVRVCDGCFAALQR 219
>pdb|1VFY|A Chain A, Phosphatidylinositol-3-Phosphate Binding Fyve Domain Of
Vps27p Protein From Saccharomyces Cerevisiae
Length = 73
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 39/64 (60%), Gaps = 5/64 (7%)
Query: 54 AVWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSA-KPLRVCL 112
A WI ++ CM C + +F++L+R+HHCR CG V C S+ LP +P+RVC
Sbjct: 6 ADWI---DSDACMICSK-KFSLLNRKHHCRSCGGVFCQEHSSNSIPLPDLGIYEPVRVCD 61
Query: 113 TCYD 116
+C++
Sbjct: 62 SCFE 65
>pdb|3MPX|A Chain A, Crystal Structure Of The Dh And Ph-1 Domains Of Human Fgd5
Length = 434
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 55/129 (42%), Gaps = 21/129 (16%)
Query: 9 IQTSSKSFAVHAATSTEKQEWMAHINKCI-EDLLRKSGKKPAATHAAVWI---------- 57
I+TS + A++ E+ EW +++ + ED + AA H +V I
Sbjct: 308 IETSESCLXLSASSCAERDEWYGCLSRALPEDY---KAQALAAFHHSVEIRERLGVSLGE 364
Query: 58 ------PDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVC 111
P C +C F++ RRHHC CG +VC CS ++ L + +VC
Sbjct: 365 RPPTLVPVTHVXXCXNCG-CDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKDRXAKVC 423
Query: 112 LTCYDVLSR 120
C+ L +
Sbjct: 424 DGCFGELKK 432
>pdb|1WFK|A Chain A, Fyve Domain Of Fyve Domain Containing 19 Protein From Mus
Musculus
Length = 88
Score = 34.7 bits (78), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 71 TQFTVLSRRHHCRKCGSVVCAPCSNKRFLLPSQSAKPLRVCLTCYDVLSRDKT 123
+FT+ + + C+ CG C C + L+P +VC C+ +L+R +
Sbjct: 17 VKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHTILTRGSS 69
>pdb|1X4U|A Chain A, Solution Structure Of The Fyve Domain From Human Fyve
Domain Containing 27 Isoform B Protein
Length = 84
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 49 AATHAAVWIPDNEAAVCMHCKRTQFTVLSRRHHCRKCGSVVCAPC-------SNKRFLLP 101
++ ++ P N C C T F+VL +R C CG+ C+ C S+ P
Sbjct: 1 GSSGSSGRYPTNNFGNCTGCSAT-FSVLKKRRSCSNCGNSFCSRCCSFKVPKSSMGATAP 59
Query: 102 SQSAKPLRVCLTCYDVLSRDKTVSG 126
+ + VC +C LS+ SG
Sbjct: 60 EAQRETVFVCASCNQTLSKSGPSSG 84
>pdb|2DN6|A Chain A, Solution Structure Of The Ph Domain Of Kiaa0640 Protein
From Human
Length = 115
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 7 WLIQTSSKSFAVHAATSTEKQEWMAHINKCIEDLLRKSGKKPAA 50
+L++ K+F + A+ +KQEW+ I+ I LL+ P++
Sbjct: 72 FLVKCFDKTFEISASDKKKKQEWIQAIHSTIH-LLKLGSSGPSS 114
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 0.130 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,273,519
Number of Sequences: 62578
Number of extensions: 163366
Number of successful extensions: 324
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 298
Number of HSP's gapped (non-prelim): 16
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)