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= psy8595
(128 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LUI|A Chain A, Crystal Structure Of The Snx17 Px Domain With Bound
Sulphate
pdb|3LUI|B Chain B, Crystal Structure Of The Snx17 Px Domain With Bound
Sulphate
pdb|3LUI|C Chain C, Crystal Structure Of The Snx17 Px Domain With Bound
Sulphate
Length = 115
Score = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/88 (53%), Positives = 62/88 (70%), Gaps = 2/88 (2%)
Query: 1 MHFSIPDTQQLCDDSG--KYTGYNLHLNGEYHCSVRYKQLHNFNEQLKKLYGPENVPSFP 58
MHFSIP+T+ DSG Y YN+H+NG HC VRY QL +EQL+K YG +P+FP
Sbjct: 4 MHFSIPETESRSGDSGGSAYVAYNIHVNGVLHCRVRYSQLLGLHEQLRKEYGANVLPAFP 63
Query: 59 PKKLFPLSVIQIEERRTHLEKYMQSCKK 86
PKKLF L+ ++E+RR LEKYMQ+ ++
Sbjct: 64 PKKLFSLTPAEVEQRREQLEKYMQAVRQ 91
>pdb|3FOG|A Chain A, Crystal Structure Of The Px Domain Of Sorting Nexin-17
(Snx17)
Length = 115
Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 47/88 (53%), Positives = 62/88 (70%), Gaps = 2/88 (2%)
Query: 1 MHFSIPDTQQLCDDSG--KYTGYNLHLNGEYHCSVRYKQLHNFNEQLKKLYGPENVPSFP 58
MHFSIP+T+ DSG Y YN+H+NG HC VRY QL +EQL+K YG +P+FP
Sbjct: 1 MHFSIPETESRSGDSGGSAYVAYNIHVNGVLHCRVRYSQLLGLHEQLRKEYGANVLPAFP 60
Query: 59 PKKLFPLSVIQIEERRTHLEKYMQSCKK 86
PKKLF L+ ++E+RR LEKYMQ+ ++
Sbjct: 61 PKKLFSLTPAEVEQRREQLEKYMQAVRQ 88
>pdb|2ETT|A Chain A, Solution Structure Of Human Sorting Nexin 22 Px Domain
Length = 128
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 34 RYKQLHNFNEQLKKLYGPENVPSFPPKKLFPLSVIQIEERRTHLEKYMQSCKKLWNSLHR 93
RY + H ++++KKLY VP FP K+L +E+RR LE Y+Q L + +
Sbjct: 51 RYSEFHALHKRIKKLY---KVPDFPSKRLPNWRTRGLEQRRQGLEAYIQGILYLNQEVPK 107
Query: 94 DIRDSQSLGAFKT 106
++ + L F T
Sbjct: 108 ELLEFLRLRHFPT 120
>pdb|2V14|A Chain A, Kinesin 16b Phox-Homology Domain (Kif16b)
Length = 134
Score = 35.4 bits (80), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 34 RYKQLHNFNEQLKKLYGPENVPSFPPKKLFPLSVIQ-IEERRTHLEKYMQ 82
RY + ++ LK Y FPPKKLF + I ERR+HLEKY++
Sbjct: 42 RYSRFREXHKTLKLKYAELAALEFPPKKLFGNKDERVIAERRSHLEKYLR 91
>pdb|1H6H|A Chain A, Structure Of The Px Domain From P40phox Bound To
Phosphatidylinositol 3-Phosphate
Length = 143
Score = 32.0 bits (71), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 10/73 (13%)
Query: 34 RYKQLHNFNEQLKKLYGPEN--------VPSFPPKKLFPLSVIQIEERRTHLEKYMQSCK 85
RY+Q H +L++ +GP++ +P+ P K + E R L YM+S
Sbjct: 57 RYRQFHALQSKLEERFGPDSKSSALACTLPTLPAKVYVGVKQEIAEMRIPALNAYMKSLL 116
Query: 86 KL--WNSLHRDIR 96
L W + D+R
Sbjct: 117 SLPVWVLMDEDVR 129
>pdb|2DYB|A Chain A, The Crystal Structure Of Human P40(Phox)
pdb|2DYB|B Chain B, The Crystal Structure Of Human P40(Phox)
Length = 341
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 27 GEYHCSVRYKQLHNFNEQLKKLYGPEN--------VPSFPPKKLFPLSVIQIEERRTHLE 78
+Y RY+Q H +L++ +GP++ +P+ P K + E R L
Sbjct: 53 SKYLIYRRYRQFHALQSKLEERFGPDSKSSALAXTLPTLPAKVYVGVKQEIAEMRIPALN 112
Query: 79 KYMQSCKKL--WNSLHRDIR 96
YM+S L W + D+R
Sbjct: 113 AYMKSLLSLPVWVLMDEDVR 132
>pdb|4AZ9|A Chain A, Crystal Structure Of Phox Homology Domain Of Human Sorting
Nexin 24
pdb|4AZ9|B Chain B, Crystal Structure Of Phox Homology Domain Of Human Sorting
Nexin 24
Length = 129
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 1 MHFSIPDTQ-QLCDDSGKYTGYNLH--LNGEYH-CSVRYKQLHNFNEQLKKLYGPENVPS 56
M IP + + D YT + + +NG H RY + H +++LKK +PS
Sbjct: 23 MEVYIPSFRYEESDLERGYTVFKIEVLMNGRKHFVEKRYSEFHALHKKLKKCIKTPEIPS 82
Query: 57 FPPKKLFPLSVIQIEERRTHLEKYMQSC 84
+ P +E+RR LE Y+Q+
Sbjct: 83 KHVRNWVPKV---LEQRRQGLETYLQAV 107
>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification
Methyltransferase Encoded Within Prophage Cp-933r
(E.Coli)
Length = 376
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 9/32 (28%), Positives = 20/32 (62%)
Query: 85 KKLWNSLHRDIRDSQSLGAFKTSLVKYLKGTV 116
+KLW + R++ D++S+ K +++ GT+
Sbjct: 228 EKLWGQIPRNVGDTESIAKLKNNIISGCTGTL 259
>pdb|1WTA|A Chain A, Crystal Structure Of 5'-Deoxy-5'-Methylthioadenosine From
Aeropyrum Pernix (R32 Form)
Length = 275
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 7 DTQQLCDDSGKYTGYNLHLNGEYHC 31
D +Q DSG+ GY +H G Y C
Sbjct: 145 DLRQRLIDSGRRLGYTVHERGTYVC 169
>pdb|4FDI|A Chain A, The Molecular Basis Of Mucopolysaccharidosis Iv A
pdb|4FDI|B Chain B, The Molecular Basis Of Mucopolysaccharidosis Iv A
pdb|4FDJ|A Chain A, The Molecular Basis Of Mucopolysaccharidosis Iv A, Complex
With Galnac
pdb|4FDJ|B Chain B, The Molecular Basis Of Mucopolysaccharidosis Iv A, Complex
With Galnac
Length = 502
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 5 IPDTQQLCDDSGKYTGYNLHLNGEYHCSVRYKQLHNFNEQLKKLYGPEN 53
IPD++QL + K GY + G++H R Q H + +G N
Sbjct: 91 IPDSEQLLPELLKKAGYVSKIVGKWHLGHR-PQFHPLKHGFDEWFGSPN 138
>pdb|1E5R|A Chain A, Proline 3-Hydroxylase (Type Ii) -Apo Form
pdb|1E5R|B Chain B, Proline 3-Hydroxylase (Type Ii) -Apo Form
pdb|1E5S|A Chain A, Proline 3-Hydroxylase (Type Ii)-Iron Form
pdb|1E5S|B Chain B, Proline 3-Hydroxylase (Type Ii)-Iron Form
Length = 290
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 7/71 (9%)
Query: 59 PKKLFPLSVIQIEERRTHLEKYMQSCKKLWNS-------LHRDIRDSQSLGAFKTSLVKY 111
P + +V +EE LWN+ L+RD++D+ + V Y
Sbjct: 18 PDLAYLAAVPTVEEEYDEFSNGFWKHVPLWNASGDSEDRLYRDLKDAAAQPTAHVEHVPY 77
Query: 112 LKGTVKETFSG 122
LK V F G
Sbjct: 78 LKEIVTTVFDG 88
>pdb|2OEW|A Chain A, Structure Of AlixAIP1 BRO1 DOMAIN
pdb|3C3O|A Chain A, Alix Bro1-Domain:chmip4a Co-Crystal Structure
pdb|3C3Q|A Chain A, Alix Bro1-domain:chmip4b Co-crystal Structure
pdb|3C3R|A Chain A, Alix Bro1 Chmp4c Complex
Length = 380
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 23 LHLNGEYHCSVRYKQLHNFNEQLKKL 48
+ N EYH S+ KQ F E++ +L
Sbjct: 273 MQANAEYHQSILAKQQKKFGEEIARL 298
>pdb|2XS1|A Chain A, Crystal Structure Of Alix In Complex With The Sivmac239
Pykevtedl Late Domain
pdb|2XS8|A Chain A, Crystal Structure Of Alix In Complex With The Sivagmtan-1
Aydparkll Late Domain
Length = 704
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 23 LHLNGEYHCSVRYKQLHNFNEQLKKL 48
+ N EYH S+ KQ + F E++ +L
Sbjct: 258 MQANAEYHQSILAKQQYYFGEEIARL 283
>pdb|2R02|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Ypltsl Late Domain
pdb|2R03|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE YPDL
Late Domain
pdb|2R05|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Yplasl Late Domain
Length = 697
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 23 LHLNGEYHCSVRYKQLHNFNEQLKKL 48
+ N EYH S+ KQ + F E++ +L
Sbjct: 251 MQANAEYHQSILAKQQYYFGEEIARL 276
>pdb|2OEV|A Chain A, Crystal Structure Of AlixAIP1
Length = 705
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 23 LHLNGEYHCSVRYKQLHNFNEQLKKL 48
+ N EYH S+ KQ + F E++ +L
Sbjct: 259 MQANAEYHQSILAKQQYYFGEEIARL 284
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 0.136 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,341,837
Number of Sequences: 62578
Number of extensions: 177707
Number of successful extensions: 422
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 406
Number of HSP's gapped (non-prelim): 19
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
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: 45 (21.9 bits)