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= psy12216
(646 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 72.4 bits (176), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 60/219 (27%), Positives = 106/219 (48%), Gaps = 27/219 (12%)
Query: 121 EIIERPSDEIEVP------QLIRQIPNLGEKNRERPLYHKYSIKARALIYAHLSNMQLTS 174
EII ++ +P L+RQ+ P ++ +K L+ AHLS MQL++
Sbjct: 1446 EIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSA 1505
Query: 175 ETLEADRMYIVKKCPYLLQEMVTCISQLILLAYAQRVPRLIHIETLENVMKLCPMIVQGM 234
E L++D I+ K L+Q V +S L+ P L M+L M+ Q M
Sbjct: 1506 E-LQSDTEEILSKAIRLIQACVDVLSSNGWLS-----PALA-------AMELAQMVTQAM 1552
Query: 235 WDFKNPLLQLPYVTDDHLKHFICKKRYIKSLQQFAQMKNEERRSVVKFMNDEQYSDMLKV 294
W + L QLP+ T +H+K C + ++S+ +M++EER ++++ + D Q +D+ +
Sbjct: 1553 WSKDSYLKQLPHFTSEHIKR--CTDKGVESVFDIMEMEDEERNALLQ-LTDSQIADVARF 1609
Query: 295 LGNMPYVDLHVQPEVIDDEATTEYTAGAIITVTCTLMRK 333
P ++L EV+D ++ +G + V L R+
Sbjct: 1610 CNRYPNIELSY--EVVDKDSI---RSGGPVVVLVQLERE 1643
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 67/151 (44%), Gaps = 24/151 (15%)
Query: 95 ITPHMALKRVLMILGASLEFDRRFNSEIIERPSDEIEVPQLIRQIPNLGEKNRERPLYHK 154
+ P ++ + + S EF I R +++E+ +L+ ++P +++ E P
Sbjct: 604 LKPTLSEIELFRVFSLSSEF-----KNITVREEEKLELQKLLERVPIPVKESIEEP---- 654
Query: 155 YSIKARALIYAHLSNMQLTSETLEADRMYIVKKCPYLLQEMVTCISQLIL-LAYAQRVPR 213
S K L+ A +S ++L L AD +Y+ + L ++ I +++L +AQ
Sbjct: 655 -SAKINVLLQAFISQLKLEGFALMADMVYVTQ----LAGRLMRAIFEIVLNRGWAQLT-- 707
Query: 214 LIHIETLENVMKLCPMIVQGMWDFKNPLLQL 244
+ + LC MI + MW PL Q
Sbjct: 708 -------DKTLNLCKMIDKRMWQSMCPLRQF 731
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 72.0 bits (175), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 60/219 (27%), Positives = 106/219 (48%), Gaps = 27/219 (12%)
Query: 121 EIIERPSDEIEVP------QLIRQIPNLGEKNRERPLYHKYSIKARALIYAHLSNMQLTS 174
EII ++ +P L+RQ+ P ++ +K L+ AHLS MQL++
Sbjct: 1446 EIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSA 1505
Query: 175 ETLEADRMYIVKKCPYLLQEMVTCISQLILLAYAQRVPRLIHIETLENVMKLCPMIVQGM 234
E L++D I+ K L+Q V +S L+ P L M+L M+ Q M
Sbjct: 1506 E-LQSDTEEILSKAIRLIQACVDVLSSNGWLS-----PALA-------AMELAQMVTQAM 1552
Query: 235 WDFKNPLLQLPYVTDDHLKHFICKKRYIKSLQQFAQMKNEERRSVVKFMNDEQYSDMLKV 294
W + L QLP+ T +H+K C + ++S+ +M++EER ++++ + D Q +D+ +
Sbjct: 1553 WSKDSYLKQLPHFTSEHIKR--CTDKGVESVFDIMEMEDEERNALLQ-LTDSQIADVARF 1609
Query: 295 LGNMPYVDLHVQPEVIDDEATTEYTAGAIITVTCTLMRK 333
P ++L EV+D ++ +G + V L R+
Sbjct: 1610 CNRYPNIELSY--EVVDKDSI---RSGGPVVVLVQLERE 1643
Score = 35.4 bits (80), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 67/151 (44%), Gaps = 24/151 (15%)
Query: 95 ITPHMALKRVLMILGASLEFDRRFNSEIIERPSDEIEVPQLIRQIPNLGEKNRERPLYHK 154
+ P ++ + + S EF I R +++E+ +L+ ++P +++ E P
Sbjct: 604 LKPTLSEIELFRVFSLSSEF-----KNITVREEEKLELQKLLERVPIPVKESIEEP---- 654
Query: 155 YSIKARALIYAHLSNMQLTSETLEADRMYIVKKCPYLLQEMVTCISQLIL-LAYAQRVPR 213
S K L+ A +S ++L L AD +Y+ + L++ I +++L +AQ
Sbjct: 655 -SAKINVLLQAFISQLKLEGFALMADMVYVTQSAGRLMR----AIFEIVLNRGWAQLT-- 707
Query: 214 LIHIETLENVMKLCPMIVQGMWDFKNPLLQL 244
+ + LC MI + MW PL Q
Sbjct: 708 -------DKTLNLCKMIDKRMWQSMCPLRQF 731
>pdb|3IM1|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2,
P212121 Form
pdb|3IM2|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2,
P41212 Form
Length = 328
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 51/220 (23%), Positives = 99/220 (45%), Gaps = 32/220 (14%)
Query: 91 AFFQITPHMA-------LKRVLMILGASLEFDRRFNSEIIERPSDEIEVPQLIRQIPNLG 143
+FF I ++ LK +L +L ++EF+ + R D + +L +++P
Sbjct: 24 SFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFES-----VPLRKGDRALLVKLSKRLP--- 75
Query: 144 EKNRERPLYHKYSIKARALIYAHLSNMQLTSETLEADRMYIVKKCPYLLQEMVTCISQLI 203
+ E S K L+ A+ S ++L + + D I++K L+ +V +S
Sbjct: 76 LRFPEHTSSGSVSFKVFLLLQAYFSRLELPVD-FQNDLKDILEKVVPLINVVVDILSANG 134
Query: 204 LLAYAQRVPRLIHIETLENVMKLCPMIVQGMWDFKNPLLQLPYVTDDHLKHFICKKRYIK 263
L M L M++QG+WD NPL Q+P+ + L+ CK+ ++
Sbjct: 135 YLNAT-------------TAMDLAQMLIQGVWDVDNPLRQIPHFNNKILEK--CKEINVE 179
Query: 264 SLQQFAQMKNEERRSVVKFMNDEQYSDMLKVLGNMPYVDL 303
++ +++EER ++ + D Q + + + N P V+L
Sbjct: 180 TVYDIMALEDEERDEILT-LTDSQLAQVAAFVNNYPNVEL 218
>pdb|2Q0Z|X Chain X, Crystal Structure Of Q9p172SEC63 FROM HOMO SAPIENS.
Northeast Structural Genomics Target Hr1979
Length = 339
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 56/219 (25%), Positives = 101/219 (46%), Gaps = 27/219 (12%)
Query: 121 EIIERPSDEIEVP------QLIRQIPNLGEKNRERPLYHKYSIKARALIYAHLSNMQLTS 174
EII ++ +P L+RQ+ P ++ +K L+ AHLS QL++
Sbjct: 50 EIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRXQLSA 109
Query: 175 ETLEADRMYIVKKCPYLLQEMVTCISQLILLAYAQRVPRLIHIETLENVMKLCPMIVQGM 234
E L++D I+ K L+Q V +S L+ P L E + V Q
Sbjct: 110 E-LQSDTEEILSKAIRLIQACVDVLSSNGWLS-----PALAAXELAQXV-------TQAX 156
Query: 235 WDFKNPLLQLPYVTDDHLKHFICKKRYIKSLQQFAQMKNEERRSVVKFMNDEQYSDMLKV 294
W + L QLP+ T +H+K C + ++S+ + ++EER ++++ + D Q +D+ +
Sbjct: 157 WSKDSYLKQLPHFTSEHIKR--CTDKGVESVFDIXEXEDEERNALLQ-LTDSQIADVARF 213
Query: 295 LGNMPYVDLHVQPEVIDDEATTEYTAGAIITVTCTLMRK 333
P ++L EV+D ++ +G + V L R+
Sbjct: 214 CNRYPNIELSY--EVVDKDSI---RSGGPVVVLVQLERE 247
>pdb|3HIB|A Chain A, Crystal Structure Of The Second Sec63 Domain Of Yeast Brr2
Length = 318
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 49/220 (22%), Positives = 96/220 (43%), Gaps = 32/220 (14%)
Query: 91 AFFQITPHMA-------LKRVLMILGASLEFDRRFNSEIIERPSDEIEVPQLIRQIPNLG 143
+FF I ++ LK L +L ++EF+ + R D + +L +++P
Sbjct: 14 SFFTIQSFVSSLSNTSTLKNXLYVLSTAVEFES-----VPLRKGDRALLVKLSKRLP--- 65
Query: 144 EKNRERPLYHKYSIKARALIYAHLSNMQLTSETLEADRMYIVKKCPYLLQEMVTCISQLI 203
+ E S K L+ A+ S ++L + + D I++K L+ +V +S
Sbjct: 66 LRFPEHTSSGSVSFKVFLLLQAYFSRLELPVD-FQNDLKDILEKVVPLINVVVDILSANG 124
Query: 204 LLAYAQRVPRLIHIETLENVMKLCPMIVQGMWDFKNPLLQLPYVTDDHLKHFICKKRYIK 263
L L ++QG+WD NPL Q+P+ + L+ CK+ ++
Sbjct: 125 YLNAT-------------TAXDLAQXLIQGVWDVDNPLRQIPHFNNKILEK--CKEINVE 169
Query: 264 SLQQFAQMKNEERRSVVKFMNDEQYSDMLKVLGNMPYVDL 303
++ +++EER ++ + D Q + + + N P V+L
Sbjct: 170 TVYDIXALEDEERDEILT-LTDSQLAQVAAFVNNYPNVEL 208
>pdb|2QX5|A Chain A, Structure Of Nucleoporin Nic96
pdb|2QX5|B Chain B, Structure Of Nucleoporin Nic96
Length = 661
Score = 32.3 bits (72), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 184 IVKKCPYLLQEMVTCISQLILL---AYAQRVPRLIHIETLENVMKLCPMIVQGMWDFKNP 240
IVK P LL ++CIS +I + + Q + I++L+NV + C MI GM ++ P
Sbjct: 589 IVKNIPNLLIITLSCISNMIHILNESKYQSSTKGQQIDSLKNVARQC-MIYAGMIQYRMP 647
>pdb|2RFO|A Chain A, Crystral Structure Of The Nucleoporin Nic96
pdb|2RFO|B Chain B, Crystral Structure Of The Nucleoporin Nic96
Length = 651
Score = 32.3 bits (72), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 184 IVKKCPYLLQEMVTCISQLILL---AYAQRVPRLIHIETLENVMKLCPMIVQGMWDFKNP 240
IVK P LL ++CIS +I + + Q + I++L+NV + C MI GM ++ P
Sbjct: 579 IVKNIPNLLIITLSCISNMIHILNESKYQSSTKGQQIDSLKNVARQC-MIYAGMIQYRMP 637
>pdb|2CUG|A Chain A, Solution Structure Of The J Domain Of The Pseudo Dnaj
Protein, Mouse Hypothetical Mkiaa0962
Length = 88
Score = 32.0 bits (71), Expect = 1.0, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 23/30 (76%), Gaps = 2/30 (6%)
Query: 1 MKLTKAYQALTDEESRRNFEKYGNPDGPGA 30
++++KAY+ L++EE R N++ YG+ GP +
Sbjct: 60 IQISKAYEILSNEEKRTNYDHYGS--GPSS 87
>pdb|3APO|A Chain A, Crystal Structure Of Full-Length Erdj5
Length = 780
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 1 MKLTKAYQALTDEESRRNFEKYG 23
+K+ +AY+ L DE+ R+ ++KYG
Sbjct: 65 LKINRAYEVLKDEDLRKKYDKYG 87
>pdb|3APQ|A Chain A, Crystal Structure Of J-Trx1 Fragment Of Erdj5
pdb|3APQ|B Chain B, Crystal Structure Of J-Trx1 Fragment Of Erdj5
Length = 210
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 1 MKLTKAYQALTDEESRRNFEKYG 23
+K+ +AY+ L DE+ R+ ++KYG
Sbjct: 46 LKINRAYEVLKDEDLRKKYDKYG 68
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
0.320 0.135 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,692,333
Number of Sequences: 62578
Number of extensions: 564275
Number of successful extensions: 1204
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1188
Number of HSP's gapped (non-prelim): 20
length of query: 646
length of database: 14,973,337
effective HSP length: 105
effective length of query: 541
effective length of database: 8,402,647
effective search space: 4545832027
effective search space used: 4545832027
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: 55 (25.8 bits)