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= psy10869
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CSK|A Chain A, Solution Structure Of Px Domain From Human Snx12
Length = 146
Score = 202 bits (515), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 95/132 (71%), Positives = 105/132 (79%)
Query: 28 NFLEIDVVNPITHGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDSK 87
NFLEID+ NP T GV + R+T YEVRM+TNLP+FK K+S VRRRYSDFEWL+NELERDSK
Sbjct: 9 NFLEIDIFNPQTVGVGRARFTTYEVRMRTNLPIFKLKESCVRRRYSDFEWLKNELERDSK 68
Query: 88 IVVPPLPGKAWKRQMPFRXXXXXXXXXXXXXXXKGLETFINKIAGHPLAQNERCLHMFLQ 147
IVVPPLPGKA KRQ+PFR +GLE FINKIAGHPLAQNERCLHMFLQ
Sbjct: 69 IVVPPLPGKALKRQLPFRGDEGIFEESFIEERRQGLEQFINKIAGHPLAQNERCLHMFLQ 128
Query: 148 EPTIDKNYVPGK 159
E ID+NYVPGK
Sbjct: 129 EEAIDRNYVPGK 140
>pdb|1OCS|A Chain A, Crystal Structure Of The Yeast Px-Doamin Protein Grd19p
(Sorting Nexin3) Complexed To
Phosphatidylinosytol-3-Phosphate.
pdb|1OCU|A Chain A, Crystal Structure Of The Yeast Px-Domain Protein Grd19p
(Sorting Nexin 3) Complexed To
Phosphatidylinosytol-3-Phospahte.
pdb|1OCU|B Chain B, Crystal Structure Of The Yeast Px-Domain Protein Grd19p
(Sorting Nexin 3) Complexed To
Phosphatidylinosytol-3-Phospahte
Length = 162
Score = 86.7 bits (213), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 71/131 (54%), Gaps = 18/131 (13%)
Query: 18 TLDDAYAAPANFLEIDVVNPITH---GV-AKKRYTDYEVRMKTNLPVFKTKDSNVRRRYS 73
+ + YA P NFLEI+V NP TH G+ +K +TDYE+ +TNLP F + S VRRRYS
Sbjct: 24 SYSEIYAEPENFLEIEVHNPKTHIPNGMDSKGMFTDYEIICRTNLPSFHKRVSKVRRRYS 83
Query: 74 DFEWLRNELERD------SKIVVPPLPGKAWKRQMPFRXXXXXXXXXXXXXXXKGLETFI 127
DFE+ R L ++ K++VP LPGK +GL T++
Sbjct: 84 DFEFFRKXLIKEISMLNHPKVMVPHLPGKIL--------LSNRFSNEVIEERRQGLNTWM 135
Query: 128 NKIAGHPLAQN 138
+AGHPL Q+
Sbjct: 136 QSVAGHPLLQS 146
>pdb|3IQ2|A Chain A, Human Sorting Nexin 7, Phox Homology (Px) Domain
pdb|3IQ2|B Chain B, Human Sorting Nexin 7, Phox Homology (Px) Domain
Length = 138
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 53/118 (44%), Gaps = 6/118 (5%)
Query: 30 LEIDVVNPITHGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDS-KI 88
L I V P +H + + Y + KT+ F + + VRRRY DF WL+ +LE +
Sbjct: 9 LFITVDEPESHVTTIETFITYRIITKTSRGEFDSSEFEVRRRYQDFLWLKGKLEEAHPTL 68
Query: 89 VVPPLPGKAWKRQMPFRXXXXXXXXXXXXXXXKGLETFINKIAGHPLAQNERCLHMFL 146
++PPLP K + M R K L F+N+IA HP +FL
Sbjct: 69 IIPPLPEKFIVKGMVER-----FNDDFIETRRKALHKFLNRIADHPTLTFNEDFKIFL 121
>pdb|2I4K|A Chain A, Solution Structure Of The Px Domain Of Sorting Nexin 1
Length = 128
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 57/122 (46%), Gaps = 4/122 (3%)
Query: 30 LEIDVVNPITHGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNEL-ERDSK- 87
L + + +P G Y Y+V +T+LP+F++K V+RR+SDF L +L E+ S+
Sbjct: 4 LTVGITDPEKIGDGMNAYVAYKVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQN 63
Query: 88 -IVVPPLPGKAWKRQMPFRXXXXXXXXXXXXXXXK-GLETFINKIAGHPLAQNERCLHMF 145
+VPP P K+ + + LE ++ +I HP + + F
Sbjct: 64 GFIVPPPPEKSLIGMTKVKVGKEDSSSAEFLEKRRAALERYLQRIVNHPTMLQDPDVREF 123
Query: 146 LQ 147
L+
Sbjct: 124 LE 125
>pdb|3HPB|A Chain A, Crystal Structure Of Snx5-Px Domain In P212121 Space Group
Length = 161
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 61/141 (43%), Gaps = 27/141 (19%)
Query: 30 LEIDVVNPITHGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDSK-- 87
L+ID+ + ++++ + V KT LP F++ + +V R++ DF WL + L +
Sbjct: 12 LQIDIPD----ALSERDKVKFTVHTKTTLPTFQSPEFSVTRQHEDFVWLHDTLTETTDYA 67
Query: 88 -IVVPPLP-----------------GKAWKRQMPFRXXXXXXXXXXXXXXXKGL---ETF 126
+++PP P G+ + F K + E F
Sbjct: 68 GLIIPPAPTKPDFDGPREKXQKLGEGEGSXTKEEFAKXKQELEAEYLAVFKKTVSSHEVF 127
Query: 127 INKIAGHPLAQNERCLHMFLQ 147
+ +++ HP+ +R H+FL+
Sbjct: 128 LQRLSSHPVLSKDRNFHVFLE 148
>pdb|3HPC|X Chain X, Crystal Structure Of Snx5-Px Domain In P21 Space Group
Length = 161
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/141 (21%), Positives = 60/141 (42%), Gaps = 27/141 (19%)
Query: 30 LEIDVVNPITHGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDSK-- 87
L+ID+ + ++++ + V KT LP F++ + +V R++ DF WL + L +
Sbjct: 12 LQIDIPD----ALSERDKVKFTVHTKTTLPTFQSPEFSVTRQHEDFVWLHDTLTETTDYA 67
Query: 88 -IVVPPLP-----------------GKAWKRQMPFRXXXXXXXXXXXXXXXKGL---ETF 126
+++PP P G+ + F K + E F
Sbjct: 68 GLIIPPAPTKPDFDGPREKMQKLGEGEGSMTKEEFAKMKQELEAEYLAVFKKTVSSHEVF 127
Query: 127 INKIAGHPLAQNERCLHMFLQ 147
+ +++ HP+ +R H+FL+
Sbjct: 128 LQRLSSHPVLSKDRNFHVFLE 148
>pdb|3I7F|A Chain A, Aspartyl Trna Synthetase From Entamoeba Histolytica
pdb|3I7F|B Chain B, Aspartyl Trna Synthetase From Entamoeba Histolytica
Length = 548
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 59 PVFKTKDSNVRRRYSDFEWLRNELE 83
PVF+ ++SN RR ++FE L E+E
Sbjct: 318 PVFRAENSNTRRHLTEFEGLDIEME 342
>pdb|4AKV|A Chain A, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
pdb|4AKV|B Chain B, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
Length = 386
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 66 SNVRRRYSDFEWLRNE-LERDSKIVVPPLPGK 96
S V RRY F+WL N L + + I VP LP K
Sbjct: 73 SPVYRRYKHFDWLYNRLLHKFTVISVPHLPEK 104
>pdb|3J15|A Chain A, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 357
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 34/67 (50%), Gaps = 4/67 (5%)
Query: 8 ATKRLHVKKQTLDDAYAAPANFLE--IDVVNPITHGVAKKRY-TDYEV-RMKTNLPVFKT 63
A+KR V +DD A A E ++++N I H + KRY TD E MK V KT
Sbjct: 130 ASKRARVMIVVIDDGEADMALVREYGVEILNSIRHNLGGKRYNTDRESEEMKFFHDVAKT 189
Query: 64 KDSNVRR 70
+ ++R
Sbjct: 190 MEEVMKR 196
>pdb|1XTN|A Chain A, Crystal Structure Of Cisk-Px Domain With Sulfates
pdb|1XTN|B Chain B, Crystal Structure Of Cisk-Px Domain With Sulfates
Length = 120
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 41/108 (37%), Gaps = 13/108 (12%)
Query: 40 HGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDSKIVVPPLPGKAWK 99
H KKR+T Y+V + + V RRY++F+ L N L++ + +P K
Sbjct: 18 HREKKKRFTVYKVLVSVG-----RSEWFVFRRYAEFDKLYNSLKKQFPAMALKIPAK--- 69
Query: 100 RQMPFRXXXXXXXXXXXXXXXKGLETFINKIAGHPLAQNERCLHMFLQ 147
R GL FI + +P N + FLQ
Sbjct: 70 -----RIFGDNFDPDFIKQRRAGLNEFIQNLVRYPELYNHPDVRAFLQ 112
>pdb|1XTE|A Chain A, Crystal Structure Of Cisk-Px Domain
Length = 154
Score = 26.2 bits (56), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 41/108 (37%), Gaps = 13/108 (12%)
Query: 40 HGVAKKRYTDYEVRMKTNLPVFKTKDSNVRRRYSDFEWLRNELERDSKIVVPPLPGKAWK 99
H KKR+T Y+V + + V RRY++F+ L N L++ + +P K
Sbjct: 18 HREKKKRFTVYKVLVSVG-----RSEWFVFRRYAEFDKLYNSLKKQFPAMALKIPAK--- 69
Query: 100 RQMPFRXXXXXXXXXXXXXXXKGLETFINKIAGHPLAQNERCLHMFLQ 147
R GL FI + +P N + FLQ
Sbjct: 70 -----RIFGDNFDPDFIKQRRAGLNEFIQNLVRYPELYNHPDVRAFLQ 112
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
0.319 0.135 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,447,240
Number of Sequences: 62578
Number of extensions: 150936
Number of successful extensions: 290
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 276
Number of HSP's gapped (non-prelim): 15
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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: 47 (22.7 bits)