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= 025977
(245 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 = 106 bits (265), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 58/164 (35%), Positives = 89/164 (54%), Gaps = 11/164 (6%)
Query: 89 AESNKGFLSVTDKKDGYSFVYPFGWQEVIIEGQ-DKVFKDVIEPLESVSV--NLIPTGKQ 145
+ + G + D DGY F+YP GW +V +E D VF D+IE E+VSV N + + K
Sbjct: 2 SSATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVASTKS 61
Query: 146 DIRDFGPPQEVAETLIKKFLAPPT--QKTKIIAASENDVDGKAYYAFEFTAQAPN----- 198
+ + G P+EV + L++ +AP + + +IAA+ D K YY E+ P
Sbjct: 62 -LEELGSPEEVGDRLLRNIIAPSESGRSSALIAATSQKADDKTYYILEYAVTLPGDGNTA 120
Query: 199 YIRHALGVVTVGNGKFYTLTTGANERRWGKMKDRLQTVIESFKI 242
RH L + V GK YTL+ A E RW K++D+ +T++ SF +
Sbjct: 121 QQRHNLSSIAVSRGKVYTLSVSAPEERWPKVEDQFKTIVSSFTV 164
>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
Synechocystis Sp. Pcc 6803
Length = 170
Score = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 53/153 (34%), Positives = 75/153 (49%), Gaps = 10/153 (6%)
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 PQEVAETLIKKF--LAPPTQKTKIIAASENDVDGKAYYAFEFTAQ-APNYIRHALGVVTV 209
+V +K + ++ ++I A D DG+ YY E+ N RH L VT
Sbjct: 77 ATDVGYRFMKTVNDASQGDRQAELINAEARDEDGQVYYTLEYRVLVGDNVERHDLASVTT 136
Query: 210 GNGKFYTLTTGANERRWGKMKDRLQTVIESFKI 242
GK T E RW +K TV SF +
Sbjct: 137 NRGKLITFDLSTAEDRWDTVKSLFDTVASSFHV 169
>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 = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 44/163 (26%), Positives = 68/163 (41%), Gaps = 22/163 (13%)
Query: 103 DGYSFVYPFGW---QEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQEV--- 156
DG+ P W +EV GQ F+D + +V V + PT K+ I DFG P++
Sbjct: 15 DGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKKSITDFGSPEQFLSQ 74
Query: 157 AETLIKK------------FLAPPTQKTKIIAASENDVDGKAYYAFEF---TAQAPNYIR 201
+ L+ + F + ++ S +V GK YY TA +
Sbjct: 75 VDYLLGRQAYSGKTDSEGGFESDAVAIANVLETSTAEVGGKQYYYLSILTRTADGNEGGK 134
Query: 202 HALGVVTVGNGKFYTLTTGANERRWGK-MKDRLQTVIESFKIS 243
H L TV +GK Y A ++RW K K ++ SF ++
Sbjct: 135 HQLVTATVNDGKLYICKAQAGDKRWFKGAKKFVENTATSFSLA 177
>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
Resolution
Length = 190
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 43/163 (26%), Positives = 72/163 (44%), Gaps = 22/163 (13%)
Query: 103 DGYSFVYPFGW---QEVIIEGQDKVFKDVIEPLESVSVNLIPTGKQDIRDFGPPQEV--- 156
DG+ + P W +E GQ ++D + ++SV + PT K+ I DFG P++
Sbjct: 28 DGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPEDFLSQ 87
Query: 157 AETLIKK------------FLAPPTQKTKIIAASENDVDGKAYYAFEF---TAQAPNYIR 201
+ L+ K F + ++ +S VDGK YY+ TA +
Sbjct: 88 VDYLLGKQAYFGKTDSEGGFDSGVVASANVLESSTPVVDGKQYYSITVLTRTADGDEGGK 147
Query: 202 HALGVVTVGNGKFYTLTTGANERRWGK-MKDRLQTVIESFKIS 243
H + TV +GK Y A ++RW K K +++ SF ++
Sbjct: 148 HQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESATSSFSVA 190
>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 = 30.4 bits (67), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 62/157 (39%), Gaps = 27/157 (17%)
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 IRDFGPPQEVAETLIKKFLA------------PPTQKTKIIAASENDVDGKAYYAFEFTA 194
+ DFG PQ ++++F+ PP T ++ + + F
Sbjct: 117 LMDFGYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVI 176
Query: 195 QAPNYIRHALGVV----TVGNGKFYTLTTGANERRWG 227
+A N + A G V VG+ K +G E R G
Sbjct: 177 EAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLG 213
>pdb|2E0K|A Chain A, Crystal Structure Of Cbil, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0K|B Chain B, Crystal Structure Of Cbil, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|A Chain A, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
pdb|2E0N|B Chain B, Crystal Structure Of Cbil In Complex With
S-Adenosylhomocysteine, A Methyltransferase Involved In
Anaerobic Vitamin B12 Biosynthesis
Length = 259
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 151 GPPQEVAETLIKKF-LAPPTQKTKIIAASENDVDGKAYYAFEFTAQAPNY-IRHALGVVT 208
G VA ++K+F L P + ++ S + +A YA + + A + VV+
Sbjct: 44 GAVTSVALDILKEFDLDPSKLRGMLVPMSRSRGAAEASYAANYASMAEEVQAGRRVAVVS 103
Query: 209 VGNGKFYTLTTGANER 224
VG+G FY+ + ER
Sbjct: 104 VGDGGFYSTASAIIER 119
>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 = 7.0, 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|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 = 27.3 bits (59), Expect = 8.7, 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
0.317 0.133 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,181,299
Number of Sequences: 62578
Number of extensions: 294347
Number of successful extensions: 707
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 694
Number of HSP's gapped (non-prelim): 9
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
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: 50 (23.9 bits)