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= psy16243
(782 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2X6T|A Chain A, Agme Bound To Adp-B-Mannose
pdb|2X6T|B Chain B, Agme Bound To Adp-B-Mannose
pdb|2X6T|C Chain C, Agme Bound To Adp-B-Mannose
pdb|2X6T|D Chain D, Agme Bound To Adp-B-Mannose
pdb|2X6T|E Chain E, Agme Bound To Adp-B-Mannose
pdb|2X6T|F Chain F, Agme Bound To Adp-B-Mannose
pdb|2X6T|G Chain G, Agme Bound To Adp-B-Mannose
pdb|2X6T|H Chain H, Agme Bound To Adp-B-Mannose
pdb|2X6T|I Chain I, Agme Bound To Adp-B-Mannose
pdb|2X6T|J Chain J, Agme Bound To Adp-B-Mannose
pdb|2X86|A Chain A, Agme Bound To Adp-b-mannose
pdb|2X86|B Chain B, Agme Bound To Adp-b-mannose
pdb|2X86|C Chain C, Agme Bound To Adp-b-mannose
pdb|2X86|D Chain D, Agme Bound To Adp-b-mannose
pdb|2X86|E Chain E, Agme Bound To Adp-b-mannose
pdb|2X86|F Chain F, Agme Bound To Adp-b-mannose
pdb|2X86|G Chain G, Agme Bound To Adp-b-mannose
pdb|2X86|H Chain H, Agme Bound To Adp-b-mannose
pdb|2X86|I Chain I, Agme Bound To Adp-b-mannose
pdb|2X86|J Chain J, Agme Bound To Adp-b-mannose
pdb|2X86|K Chain K, Agme Bound To Adp-b-mannose
pdb|2X86|L Chain L, Agme Bound To Adp-b-mannose
pdb|2X86|M Chain M, Agme Bound To Adp-b-mannose
pdb|2X86|N Chain N, Agme Bound To Adp-b-mannose
pdb|2X86|O Chain O, Agme Bound To Adp-b-mannose
pdb|2X86|P Chain P, Agme Bound To Adp-b-mannose
pdb|2X86|Q Chain Q, Agme Bound To Adp-b-mannose
pdb|2X86|R Chain R, Agme Bound To Adp-b-mannose
pdb|2X86|S Chain S, Agme Bound To Adp-b-mannose
pdb|2X86|T Chain T, Agme Bound To Adp-b-mannose
Length = 357
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 284 NIHVVFH---CAATVRFDAHLKVAVSINLRATKALLEMAKEMKQLKSFVHVSTAYSNCRQ 340
++ +FH C++T +D K + N + +K LL E + + + Y
Sbjct: 115 DVEAIFHEGACSSTTEWDG--KYMMDNNYQYSKELLHYCLEREIPFLYASSAATYGGRTS 172
Query: 341 PIIEERFYEPPVNPNHLIQITELLNDDMIDKITP 374
IE R YE P+N + ++ L D+ + +I P
Sbjct: 173 DFIESREYEKPLN---VFGYSKFLFDEYVRQILP 203
>pdb|1LTL|A Chain A, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|B Chain B, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|C Chain C, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|D Chain D, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|E Chain E, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|F Chain F, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
Length = 279
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 55/139 (39%), Gaps = 34/139 (24%)
Query: 247 PMRKRCPHYLSKMVAVTG-----DCLKPGVGINSEDRQTLVDNIHVVFHCAATVRFDAHL 301
P+R+ ++ K VAV G D ++P + + VF C +R H
Sbjct: 101 PLRELRSKFIGKFVAVDGIVRKTDEIRPRI-------------VKAVFECRGCMR---HH 144
Query: 302 KVAVSINLRATKALLEMA-----KEMKQLKSFVHVSTAYSNCRQPIIEERFYEPPVNPNH 356
V S N+ +L + ++ F+ T ++P+ E P
Sbjct: 145 AVTQSTNMITEPSLCSECGGRSFRLLQDESEFLDTQTL--KLQEPLENLSGGEQPR---- 198
Query: 357 LIQITELLNDDMIDKITPG 375
QIT +L DD++D +TPG
Sbjct: 199 --QITVVLEDDLVDTLTPG 215
>pdb|3GZN|A Chain A, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
pdb|3GZN|C Chain C, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
Length = 534
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 11/105 (10%)
Query: 320 KEMKQLKSFVHVSTAYSNCRQPIIEERFYEPPVNPNHLIQITEL-------LNDDMIDKI 372
KE + + + + P EE F E N N + T++ NDD I
Sbjct: 238 KEKEDFRDLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINI 297
Query: 373 TPGIVDYWPNTYALTKQVAEDMVRRGGAGMPVAMVRPSIVIATNK 417
T +W L + + E + + G +PV P ++ + K
Sbjct: 298 TKQTPSFW----ILARALKEFVAKEGQGNLPVRGTIPDMIADSGK 338
>pdb|2NVU|A Chain A, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A
Trapped Ubiquitin-Like Protein Activation Complex
Length = 536
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 11/105 (10%)
Query: 320 KEMKQLKSFVHVSTAYSNCRQPIIEERFYEPPVNPNHLIQITEL-------LNDDMIDKI 372
KE + + + + P EE F E N N + T++ NDD I
Sbjct: 240 KEKEDFRDLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINI 299
Query: 373 TPGIVDYWPNTYALTKQVAEDMVRRGGAGMPVAMVRPSIVIATNK 417
T +W L + + E + + G +PV P ++ + K
Sbjct: 300 TKQTPSFW----ILARALKEFVAKEGQGNLPVRGTIPDMIADSGK 340
>pdb|1YOV|A Chain A, Insights Into The Ubiquitin Transfer Cascade From The
Refined Structure Of The Activating Enzyme For Nedd8
pdb|1YOV|C Chain C, Insights Into The Ubiquitin Transfer Cascade From The
Refined Structure Of The Activating Enzyme For Nedd8
Length = 537
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 23/105 (21%), Positives = 39/105 (37%), Gaps = 11/105 (10%)
Query: 320 KEMKQLKSFVHVSTAYSNCRQPIIEERFYEPPVNPNHLIQITEL-------LNDDMIDKI 372
KE + + + + P EE F E N N + T++ NDD I
Sbjct: 241 KEKEDFRDLIRQGILKNENGAPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINI 300
Query: 373 TPGIVDYWPNTYALTKQVAEDMVRRGGAGMPVAMVRPSIVIATNK 417
T +W L + + E + + G +PV P ++ + K
Sbjct: 301 TKQTPSFW----ILARALKEFVAKEGQGNLPVRGTIPDMIADSGK 341
>pdb|4EAI|B Chain B, Co-Crystal Structure Of An Ampk Core With Amp
pdb|4EAJ|B Chain B, Co-Crystal Of Ampk Core With Amp Soaked With Atp
Length = 85
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 83 EERFYEPPVNPNHLIQITELLNDDMIDKITPGIV 116
EERF PP+ P HL+Q+ +LN D P ++
Sbjct: 12 EERFKSPPILPPHLLQV--ILNKDTNISCDPALL 43
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 344 EERFYEPPVNPNHLIQITELLNDDMIDKITPGIV 377
EERF PP+ P HL+Q+ +LN D P ++
Sbjct: 12 EERFKSPPILPPHLLQV--ILNKDTNISCDPALL 43
>pdb|2V8Q|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Amp
pdb|2V92|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Atp-Amp
pdb|2V9J|B Chain B, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Mg.Atp-Amp
pdb|2Y8L|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Two Adp
pdb|2Y8Q|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With One Adp
pdb|2Y94|B Chain B, Structure Of An Active Form Of Mammalian Ampk
pdb|2YA3|B Chain B, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Coumarin Adp
Length = 87
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 83 EERFYEPPVNPNHLIQITELLNDDMIDKITPGIV 116
EERF PP+ P HL+Q+ +LN D P ++
Sbjct: 14 EERFKSPPILPPHLLQV--ILNKDTNISCDPALL 45
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 344 EERFYEPPVNPNHLIQITELLNDDMIDKITPGIV 377
EERF PP+ P HL+Q+ +LN D P ++
Sbjct: 14 EERFKSPPILPPHLLQV--ILNKDTNISCDPALL 45
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
0.322 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,168,144
Number of Sequences: 62578
Number of extensions: 855285
Number of successful extensions: 1737
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1733
Number of HSP's gapped (non-prelim): 17
length of query: 782
length of database: 14,973,337
effective HSP length: 106
effective length of query: 676
effective length of database: 8,340,069
effective search space: 5637886644
effective search space used: 5637886644
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)