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= 011140
(492 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 = 70.9 bits (172), Expect = 1e-12, Method: Composition-based stats.
Identities = 31/59 (52%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRC 480
W D V C ACG FS VR+HHCR CG+IFC +C+ + ALT ++ +PVRVCD C
Sbjct: 63 WAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECS-AKNALTP-SSKKPVRVCDAC 119
>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 = 70.1 bits (170), Expect = 3e-12, Method: Composition-based stats.
Identities = 31/59 (52%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRC 480
W D V C ACG FS VR+HHCR CG+IFC +C+ + ALT ++ +PVRVCD C
Sbjct: 3 WAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECS-AKNALTP-SSKKPVRVCDAC 59
>pdb|1Z2Q|A Chain A, High-Resolution Solution Structure Of The Lm5-1 Fyve
Domain From Leishmania Major
Length = 84
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 37/68 (54%)
Query: 417 EEKDHWVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRV 476
+ K +W DE C CG F+ VR+HHCRNCG + C C+ R A+ +P RV
Sbjct: 10 QSKGYWQEDEDAPACNGCGCVFTTTVRRHHCRNCGYVLCGDCSRHRAAIPMRGITEPERV 69
Query: 477 CDRCMVGV 484
CD C + +
Sbjct: 70 CDACYLAL 77
>pdb|2YQM|A Chain A, Solution Structure Of The Fyve Domain In Zinc Finger Fyve
Domain-Containing Protein 12
Length = 89
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ D+ + C C +FS RKHHCRNCG IFC+ C+ +AL + +PVRVCD C
Sbjct: 20 WLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELAL--PSYPKPVRVCDSCH 77
Query: 482 VGVIDWLISLA 492
++ S A
Sbjct: 78 TLLLQRCSSTA 88
>pdb|2YW8|A Chain A, Crystal Structure Of Human Run And Fyve Domain-Containing
Protein
Length = 82
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ D+ + C C +FS RKHHCRNCG IFC+ C+ +AL + +PVRVCD C
Sbjct: 13 WLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELAL--PSYPKPVRVCDSCH 70
Query: 482 VGVIDWLISLA 492
++ S A
Sbjct: 71 TLLLQRCSSTA 81
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 30/54 (55%)
Query: 431 CTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCMVGV 484
C C +F+ RKHHCRNCG +FC +CT + L + VRVCD C +
Sbjct: 164 CHRCRVEFTFTNRKHHCRNCGQVFCGQCTAKQCPLPKYGIEKEVRVCDGCFAAL 217
>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 = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRC 480
WV E +C C F RKHHCR CG IFC KC+ + + VRVC+ C
Sbjct: 161 WVDAE---ECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPC 216
>pdb|1VFY|A Chain A, Phosphatidylinositol-3-Phosphate Binding Fyve Domain Of
Vps27p Protein From Saccharomyces Cerevisiae
Length = 73
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ +A C C FS RKHHCR+CG +FC + + I L +PVRVCD C
Sbjct: 8 WIDSDA---CMICSKKFSLLNRKHHCRSCGGVFCQEHSSNSIPLPDLGIYEPVRVCDSCF 64
>pdb|3MPX|A Chain A, Crystal Structure Of The Dh And Ph-1 Domains Of Human Fgd5
Length = 434
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 423 VPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
VP V C CG DFS +R+HHC CG I C C+ + L + + +VCD C
Sbjct: 370 VPVTHVXXCXNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKD-RXAKVCDGCF 427
>pdb|3T7L|A Chain A, Crystal Structure Of The Fyve Domain Of Endofin (Zfyve16)
At 1.1a Resolution
Length = 90
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 2/64 (3%)
Query: 417 EEKDHWVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRV 476
+++ WVPD C C F+ R+HHCR CG +FC C + + L + RV
Sbjct: 9 QKQPTWVPDSEAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKL--QYLEKEARV 66
Query: 477 CDRC 480
C C
Sbjct: 67 CVVC 70
>pdb|1X4U|A Chain A, Solution Structure Of The Fyve Domain From Human Fyve
Domain Containing 27 Isoform B Protein
Length = 84
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 415 GNEEKDHWVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRI------ALTAD 468
G+ P CT C FS ++ C NCG+ FC +C ++ A +
Sbjct: 1 GSSGSSGRYPTNNFGNCTGCSATFSVLKKRRSCSNCGNSFCSRCCSFKVPKSSMGATAPE 60
Query: 469 ANAQPVRVCDRC 480
A + V VC C
Sbjct: 61 AQRETVFVCASC 72
>pdb|1WFK|A Chain A, Fyve Domain Of Fyve Domain Containing 19 Protein From Mus
Musculus
Length = 88
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 429 SKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRC 480
S+C C F+ F +++ C+NCG FC+ C + N Q +VC +C
Sbjct: 10 SRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQ-KVCKQC 60
>pdb|1Y02|A Chain A, Crystal Structure Of A Fyve-type Domain From Caspase
Regulator Carp2
Length = 120
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 431 CTACGTDFSAFVRKHHCRNCGDIFCDKCT 459
C +CG F+ RK C +C FC C+
Sbjct: 22 CKSCGAHFANTARKQTCLDCKKNFCMTCS 50
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 0.132 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,131,653
Number of Sequences: 62578
Number of extensions: 316786
Number of successful extensions: 827
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 810
Number of HSP's gapped (non-prelim): 14
length of query: 492
length of database: 14,973,337
effective HSP length: 103
effective length of query: 389
effective length of database: 8,527,803
effective search space: 3317315367
effective search space used: 3317315367
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: 53 (25.0 bits)