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= 008295
(571 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 = 7e-12, Method: Composition-based stats.
Identities = 31/63 (49%), Positives = 41/63 (65%), Gaps = 2/63 (3%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W D V C ACG FS VR+HHCR CG+IFC +C+ + ALT ++ +PVRVCD C
Sbjct: 63 WAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECS-AKNALTP-SSKKPVRVCDACF 120
Query: 482 AEV 484
++
Sbjct: 121 NDL 123
>pdb|2YQM|A Chain A, Solution Structure Of The Fyve Domain In Zinc Finger Fyve
Domain-Containing Protein 12
Length = 89
Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ D+ + C C +FS RKHHCRNCG IFC+ C+ +AL + +PVRVCD C
Sbjct: 20 WLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELAL--PSYPKPVRVCDSCH 77
Query: 482 AEVTQRLSN 490
+ QR S+
Sbjct: 78 TLLLQRCSS 86
>pdb|2YW8|A Chain A, Crystal Structure Of Human Run And Fyve Domain-Containing
Protein
Length = 82
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ D+ + C C +FS RKHHCRNCG IFC+ C+ +AL + +PVRVCD C
Sbjct: 13 WLKDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALP--SYPKPVRVCDSCH 70
Query: 482 AEVTQRLSN 490
+ QR S+
Sbjct: 71 TLLLQRCSS 79
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/63 (49%), Positives = 40/63 (63%), Gaps = 2/63 (3%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W D V C ACG FS VR+HHCR CG+IFC +C+ + ALT + +PVRVCD C
Sbjct: 3 WAEDNEVQNCMACGKGFSVTVRRHHCRQCGNIFCAECS-AKNALTPSSK-KPVRVCDACF 60
Query: 482 AEV 484
++
Sbjct: 61 NDL 63
>pdb|1Z2Q|A Chain A, High-Resolution Solution Structure Of The Lm5-1 Fyve
Domain From Leishmania Major
Length = 84
Score = 63.9 bits (154), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 27/64 (42%), Positives = 35/64 (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 CDRC 480
CD C
Sbjct: 70 CDAC 73
>pdb|3MPX|A Chain A, Crystal Structure Of The Dh And Ph-1 Domains Of Human Fgd5
Length = 434
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 423 VPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCMA 482
VP V C CG DFS +R+HHC CG I C C+ + L + + +VCD C
Sbjct: 370 VPVTHVXXCXNCGCDFSLTLRRHHCHACGKIVCRNCSRNKYPLKYLKD-RXAKVCDGCFG 428
Query: 483 EVTQR 487
E+ +R
Sbjct: 429 ELKKR 433
>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 = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 31/54 (57%)
Query: 431 CTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCMAEV 484
C C +F+ RKHHCRNCG +FC +CT + L + VRVCD C A +
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 = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
WV E +C C F RKHHCR CG IFC KC+ + + VRVC+ C
Sbjct: 161 WVDAE---ECHRCRVQFGVMTRKHHCRACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPCY 217
Query: 482 AEVTQR 487
++ ++
Sbjct: 218 EQLNRK 223
>pdb|1VFY|A Chain A, Phosphatidylinositol-3-Phosphate Binding Fyve Domain Of
Vps27p Protein From Saccharomyces Cerevisiae
Length = 73
Score = 52.4 bits (124), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
W+ +A C C FS RKHHCR+CG +FC + + I L +PVRVCD C
Sbjct: 8 WIDSDA---CMICSKKFSLLNRKHHCRSCGGVFCQEHSSNSIPLPDLGIYEPVRVCDSCF 64
Query: 482 AE 483
+
Sbjct: 65 ED 66
>pdb|3T7L|A Chain A, Crystal Structure Of The Fyve Domain Of Endofin (Zfyve16)
At 1.1a Resolution
Length = 90
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 422 WVPDEAVSKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCM 481
WVPD C C F+ R+HHCR CG +FC C + + L + RVC C
Sbjct: 14 WVPDSEAPNCMNCQVKFTFTKRRHHCRACGKVFCGVCCNRKCKL--QYLEKEARVCVVCY 71
Query: 482 AEVTQ 486
+++
Sbjct: 72 ETISK 76
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 429 SKCTACGTDFSAFVRKHHCRNCGDIFCDKCTHGRIALTADANAQPVRVCDRCMAEVTQ 486
S+C C F+ F +++ C+NCG FC+ C + N Q +VC +C +T+
Sbjct: 10 SRCYGCAVKFTLFKKEYGCKNCGRAFCNGCLSFSALVPRAGNTQQ-KVCKQCHTILTR 66
>pdb|1Y02|A Chain A, Crystal Structure Of A Fyve-type Domain From Caspase
Regulator Carp2
Length = 120
Score = 28.9 bits (63), Expect = 9.2, 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
0.316 0.130 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,618,959
Number of Sequences: 62578
Number of extensions: 356270
Number of successful extensions: 914
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: 897
Number of HSP's gapped (non-prelim): 14
length of query: 571
length of database: 14,973,337
effective HSP length: 104
effective length of query: 467
effective length of database: 8,465,225
effective search space: 3953260075
effective search space used: 3953260075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)