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= 030275
(180 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 60.5 bits (145), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 54/93 (58%), Gaps = 6/93 (6%)
Query: 91 SNKGFLSVTDKKDGYSFVYPFGWQEVIIEG-QDKVFKDVIEPLESVS--VNLIPTGKQDI 147
+ G + D DGY F+YP GW +V +E D VF D+IE E+VS VN + + K +
Sbjct: 4 ATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVASTKS-L 62
Query: 148 RDFGPPQEVAETLIKKFLAPPT--QKTKIIAAS 178
+ G P+EV + L++ +AP + + +IAA+
Sbjct: 63 EELGSPEEVGDRLLRNIIAPSESGRSSALIAAT 95
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 41/70 (58%), Gaps = 7/70 (10%)
Query: 99 TDKKDGYSFVYPFGWQEVIIEGQ----DKVFKDVIEPLESVSVNL--IPTGKQDIRDFGP 152
+D KDGY F+YP GW V ++G D VF+D+IE E++SV + IP+ K + D G
Sbjct: 18 SDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSDKT-LTDLGT 76
Query: 153 PQEVAETLIK 162
+V +K
Sbjct: 77 ATDVGYRFMK 86
>pdb|1V2B|A Chain A, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
pdb|1V2B|B Chain B, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
Complex Of Photosystem Ii From Higher Plants
Length = 177
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 103 DGYSFVYPFGW---QEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQE 155
DG+ P W +EV GQ F+D + +V V + PT K+ I DFG P++
Sbjct: 15 DGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKKSITDFGSPEQ 70
>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
Resolution
Length = 190
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 103 DGYSFVYPFGW---QEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQE 155
DG+ + P W +E GQ ++D + ++SV + PT K+ I DFG P++
Sbjct: 28 DGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPED 83
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 76 WVSLVNQTPPSFAAESNKGFLSVTDKKDGYSFVYPFGWQEVIIEGQD 122
W S V Q+ F + +K + V K G++ P GW ++ QD
Sbjct: 317 WSSSVTQSEVFFGDKVDKCYKCVV--KQGHTLFVPTGWIHAVLTSQD 361
>pdb|1W63|M Chain M, Ap1 Clathrin Adaptor Core
pdb|1W63|N Chain N, Ap1 Clathrin Adaptor Core
pdb|1W63|O Chain O, Ap1 Clathrin Adaptor Core
pdb|1W63|P Chain P, Ap1 Clathrin Adaptor Core
pdb|1W63|R Chain R, Ap1 Clathrin Adaptor Core
pdb|1W63|V Chain V, Ap1 Clathrin Adaptor Core
Length = 423
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 11/85 (12%)
Query: 92 NKGFLSVTDKKDG-YSFVYPFGWQEVIIEGQDKVFKDVIEPLESVSVN----LIPTGKQD 146
N +L T KK+ S V+ F ++ V +VF + + LE S+ +I +
Sbjct: 63 NNLYLVATSKKNACVSLVFSFLYKVV------QVFSEYFKELEEESIRDNFVIIYELLDE 116
Query: 147 IRDFGPPQEVAETLIKKFLAPPTQK 171
+ DFG PQ ++++F+ K
Sbjct: 117 LMDFGYPQTTDSKILQEFITQEGHK 141
>pdb|3KV9|A Chain A, Structure Of Kiaa1718 Jumonji Domain
pdb|3KVA|A Chain A, Structure Of Kiaa1718 Jumonji Domain In Complex With
Alpha- Ketoglutarate
pdb|3KVB|A Chain A, Structure Of Kiaa1718 Jumonji Domain In Complex With N-
Oxalylglycine
pdb|3U78|A Chain A, E67-2 Selectively Inhibits Kiaa1718, A Human Histone H3
Lysine 9 Jumonji Demethylase
Length = 397
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 76 WVSLVNQTPPSFAAESNKGFLSVTDKKDGYSFVYPFGWQEVIIEGQD 122
W S V Q+ F + +K + V K G++ P GW ++ QD
Sbjct: 226 WSSSVTQSEVFFGDKVDKCYKCVV--KQGHTLFVPTGWIHAVLTSQD 270
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 0.132 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,127,594
Number of Sequences: 62578
Number of extensions: 196965
Number of successful extensions: 511
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 504
Number of HSP's gapped (non-prelim): 7
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
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: 48 (23.1 bits)