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= 014410
(425 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 56/104 (53%)
Query: 5 LVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEM 64
L++ ATS+ L + DW ++IC+L+ + AK + +IKK++ KN +V LYA+ ++E
Sbjct: 12 LLDKATSQLLLETDWESILQICDLIRQGDTQAKYAVNSIKKKVNDKNPHVALYALEVMES 71
Query: 65 LMNNIGDHIHKLVIDTGXXXXXXXXXXXXSDLPVRERIFLLLDA 108
++ N G +H V + ++ VR +I L+ A
Sbjct: 72 VVKNCGQTVHDEVANKQTMEELKDLLKRQVEVNVRNKILYLIQA 115
>pdb|1ELK|A Chain A, Vhs Domain Of Tom1 Protein From H. Sapiens
pdb|1ELK|B Chain B, Vhs Domain Of Tom1 Protein From H. Sapiens
Length = 157
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 6 VNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRL-GSKNTNVQLYAVMLLEM 64
+ AT L DW N+EIC+++ + KD ++A+KKR+ G+KN + + A+ +LE
Sbjct: 21 IEKATDGSLQSEDWALNMEICDIINETEEGPKDALRAVKKRIVGNKNFHEVMLALTVLET 80
Query: 65 LMNNIGDHIHKLV 77
+ N G H LV
Sbjct: 81 CVKNCGHRFHVLV 93
>pdb|1X5B|A Chain A, The Solution Structure Of The Vhs Domain Of Human Signal
Transducing Adaptor Molecule 2
pdb|2L0T|B Chain B, Solution Structure Of The Complex Of Ubiquitin And The
Vhs Domain Of Stam2
Length = 163
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 36/69 (52%)
Query: 6 VNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEML 65
V AT+E DW+ ++IC+ V AKD +KAI KR+ K +V L A+ LL
Sbjct: 20 VEKATNEYNTTEDWSLIMDICDKVGSTPNGAKDCLKAIMKRVNHKVPHVALQALTLLGAC 79
Query: 66 MNNIGDHIH 74
+ N G H
Sbjct: 80 VANCGKIFH 88
>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 = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 40/73 (54%)
Query: 6 VNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEML 65
+ +ATS + DW + IC+ + + K+ AIKK++ S N + Y++++LE +
Sbjct: 10 LENATSHLRLEPDWPSILLICDEINQKDVTPKNAFAAIKKKMNSPNPHSSCYSLLVLESI 69
Query: 66 MNNIGDHIHKLVI 78
+ N G +H+ V
Sbjct: 70 VKNCGAPVHEEVF 82
>pdb|3LDZ|A Chain A, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|D Chain D, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|B Chain B, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|C Chain C, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
Length = 140
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 38/69 (55%)
Query: 6 VNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEML 65
V ATSE DW ++IC+ V + + KD +++I +R+ K+ +V + A+ LL
Sbjct: 10 VEKATSEMNTAEDWGLILDICDKVGQSRTGPKDCLRSIMRRVNHKDPHVAMQALTLLGAC 69
Query: 66 MNNIGDHIH 74
++N G H
Sbjct: 70 VSNCGKIFH 78
>pdb|3RRU|A Chain A, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
pdb|3RRU|B Chain B, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
Length = 152
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 5/77 (6%)
Query: 5 LVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTN---VQLYAVML 61
L+ AT + DW + IC+++ Q KD +KA+KKR+ SKN N +QL + L
Sbjct: 20 LIEKATFAGVQTEDWGQFXHICDIINTTQDGPKDAVKALKKRI-SKNYNHKEIQL-TLSL 77
Query: 62 LEMLMNNIGDHIHKLVI 78
++ + N G L++
Sbjct: 78 IDXCVQNCGPSFQSLIV 94
>pdb|1MHQ|A Chain A, Crystal Structure Of Human Gga2 Vhs Domain
pdb|1MHQ|B Chain B, Crystal Structure Of Human Gga2 Vhs Domain
Length = 148
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%)
Query: 5 LVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEM 64
+N AT +++ DW+ CE V D + ++ S LYA+ +LEM
Sbjct: 5 WLNKATDPSMSEQDWSAIQNFCEQVNTDPNGPTHAPWLLAHKIQSPQEKEALYALTVLEM 64
Query: 65 LMNNIGDHIH 74
MN+ G+ H
Sbjct: 65 CMNHCGEKFH 74
>pdb|1WRD|A Chain A, Crystal Structure Of Tom1 Gat Domain In Complex With
Ubiquitin
Length = 103
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 41/84 (48%)
Query: 180 QIVPESSIIQKASNALEVLKDVLDAVGTQNPEGAKDEFTLDLVEQCSFQKQRVMHLVMTS 239
QI S ++ S + V+ ++L + E A E +L C +QRV+ L+
Sbjct: 7 QIGKLRSELEMVSGNVRVMSEMLTELVPTQAEPADLELLQELNRTCRAMQQRVLELIPQI 66
Query: 240 RDEKVVSQAIDLNEQLQNVLARHD 263
+E++ + + +N+ L NV RH+
Sbjct: 67 ANEQLTEELLIVNDNLNNVFLRHE 90
>pdb|1LF8|A Chain A, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|B Chain B, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|C Chain C, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|D Chain D, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
Length = 171
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 31/73 (42%)
Query: 5 LVNSATSEKLADVDWTKNIEICELVARDQRHAKDVIKAIKKRLGSKNTNVQLYAVMLLEM 64
+N AT+ DW I C+ + ++ + ++ + ++ S L A+ +LE
Sbjct: 17 WLNKATNPSNRQEDWEYIIGFCDQINKELEGPQIAVRLLAHKIQSPQEWEALQALTVLEA 76
Query: 65 LMNNIGDHIHKLV 77
M N G H V
Sbjct: 77 CMKNCGRRFHNEV 89
>pdb|3KH2|A Chain A, Crystal Structure Of The P1 Bacteriophage Doc Toxin (F68s)
In Complex With The Phd Antitoxin (L17mV39A). NORTHEAST
STRUCTURAL GENOMICS Targets Er385-Er386
pdb|3KH2|B Chain B, Crystal Structure Of The P1 Bacteriophage Doc Toxin (F68s)
In Complex With The Phd Antitoxin (L17mV39A). NORTHEAST
STRUCTURAL GENOMICS Targets Er385-Er386
pdb|3KH2|C Chain C, Crystal Structure Of The P1 Bacteriophage Doc Toxin (F68s)
In Complex With The Phd Antitoxin (L17mV39A). NORTHEAST
STRUCTURAL GENOMICS Targets Er385-Er386
pdb|3KH2|D Chain D, Crystal Structure Of The P1 Bacteriophage Doc Toxin (F68s)
In Complex With The Phd Antitoxin (L17mV39A). NORTHEAST
STRUCTURAL GENOMICS Targets Er385-Er386
Length = 134
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 147 SHPSSDANKKVTLNGELASSRNEGVTLAQQPE 178
H S+DANK+ LN L R GV + PE
Sbjct: 65 GHISNDANKRTALNSALLFLRRNGVQVFDSPE 96
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
0.313 0.129 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,730,274
Number of Sequences: 62578
Number of extensions: 402565
Number of successful extensions: 657
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 18
length of query: 425
length of database: 14,973,337
effective HSP length: 102
effective length of query: 323
effective length of database: 8,590,381
effective search space: 2774693063
effective search space used: 2774693063
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)