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= 019396
(341 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 60/253 (23%), Positives = 103/253 (40%), Gaps = 61/253 (24%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK-VR 68
+GWL PA+ +EL+Q + QA+ + QLPHFT IK+ K V
Sbjct: 1531 SNGWLSPALAAMELAQMVTQAM-----------WSKDSYLKQLPHFTSEHIKRCTDKGVE 1579
Query: 69 TFQELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 128
+ ++ +M ++R LL + +++ DV P++ I+ G
Sbjct: 1580 SVFDIMEMEDEERNALLQ----LTDSQIADVARFCNRYPNI--ELSYEVVDKDSIRSGGP 1633
Query: 129 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 188
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++ +
Sbjct: 1634 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKR---------L 1681
Query: 189 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 248
T KA KV+ APA G +N T Y + D
Sbjct: 1682 TLQQKA------------------------KVKLD-------FVAPATGAHNYTLYFMSD 1710
Query: 249 SWLGCDKRTNLKV 261
+++GCD+ V
Sbjct: 1711 AYMGCDQEYKFSV 1723
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 60/253 (23%), Positives = 103/253 (40%), Gaps = 61/253 (24%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK-VR 68
+GWL PA+ +EL+Q + QA+ + QLPHFT IK+ K V
Sbjct: 1531 SNGWLSPALAAMELAQMVTQAM-----------WSKDSYLKQLPHFTSEHIKRCTDKGVE 1579
Query: 69 TFQELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 128
+ ++ +M ++R LL + +++ DV P++ I+ G
Sbjct: 1580 SVFDIMEMEDEERNALLQ----LTDSQIADVARFCNRYPNI--ELSYEVVDKDSIRSGGP 1633
Query: 129 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 188
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++ +
Sbjct: 1634 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKR---------L 1681
Query: 189 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 248
T KA KV+ APA G +N T Y + D
Sbjct: 1682 TLQQKA------------------------KVKLD-------FVAPATGAHNYTLYFMSD 1710
Query: 249 SWLGCDKRTNLKV 261
+++GCD+ V
Sbjct: 1711 AYMGCDQEYKFSV 1723
>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 = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 51/264 (19%), Positives = 99/264 (37%), Gaps = 60/264 (22%)
Query: 1 MAVIPRTAQGHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVI 60
+ V+ +G+L A ++L+Q +IQ G + P Q+PHF ++
Sbjct: 123 INVVVDILSANGYLN-ATTAMDLAQMLIQ-----------GVWDVDNPLRQIPHFNNKIL 170
Query: 61 KKIAR-KVRTFQELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXX 119
+K V T ++ + ++R E+L+ + +++ V + P++
Sbjct: 171 EKCKEINVETVYDIMALEDEERDEILT----LTDSQLAQVAAFVNNYPNVELTYSLNNSD 226
Query: 120 XXXIQEGDIVTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKV 179
+TIQ ++ N + + YPF K E++W +L + ++ +KV
Sbjct: 227 SLISGVKQKITIQLTRDVEPENLQVTS----EKYPFDKLESWWLVLGEVSKKELYAIKKV 282
Query: 180 SFMDEPAAITAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNY 239
+ KET E P G +
Sbjct: 283 TLN------------------------KETQQYELE---------------FDTPTSGKH 303
Query: 240 NLTCYCLCDSWLGCDKRTNLKVKI 263
NLT +C+CDS+L DK + ++ +
Sbjct: 304 NLTIWCVCDSYLDADKELSFEINV 327
>pdb|3HIB|A Chain A, Crystal Structure Of The Second Sec63 Domain Of Yeast Brr2
Length = 318
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 51/264 (19%), Positives = 98/264 (37%), Gaps = 60/264 (22%)
Query: 1 MAVIPRTAQGHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVI 60
+ V+ +G+L A +L+Q +IQ G + P Q+PHF ++
Sbjct: 113 INVVVDILSANGYLN-ATTAXDLAQXLIQ-----------GVWDVDNPLRQIPHFNNKIL 160
Query: 61 KKIAR-KVRTFQELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXX 119
+K V T ++ + ++R E+L+ + +++ V + P++
Sbjct: 161 EKCKEINVETVYDIXALEDEERDEILT----LTDSQLAQVAAFVNNYPNVELTYSLNNSD 216
Query: 120 XXXIQEGDIVTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKV 179
+TIQ ++ N + + YPF K E++W +L + ++ +KV
Sbjct: 217 SLISGVKQKITIQLTRDVEPENLQVTS----EKYPFDKLESWWLVLGEVSKKELYAIKKV 272
Query: 180 SFMDEPAAITAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNY 239
+ KET E P G +
Sbjct: 273 TLN------------------------KETQQYELE---------------FDTPTSGKH 293
Query: 240 NLTCYCLCDSWLGCDKRTNLKVKI 263
NLT +C+CDS+L DK + ++ +
Sbjct: 294 NLTIWCVCDSYLDADKELSFEINV 317
>pdb|2Q0Z|X Chain X, Crystal Structure Of Q9p172SEC63 FROM HOMO SAPIENS.
Northeast Structural Genomics Target Hr1979
Length = 339
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 56/255 (21%), Positives = 98/255 (38%), Gaps = 61/255 (23%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK-VR 68
+GWL PA+ EL+Q + QA + QLPHFT IK+ K V
Sbjct: 135 SNGWLSPALAAXELAQXVTQA-----------XWSKDSYLKQLPHFTSEHIKRCTDKGVE 183
Query: 69 TFQELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 128
+ ++ + ++R LL + +++ DV P++ I+ G
Sbjct: 184 SVFDIXEXEDEERNALLQ----LTDSQIADVARFCNRYPNIELSYEVVDKDS--IRSGGP 237
Query: 129 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 188
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++++
Sbjct: 238 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKRLTLQ------ 288
Query: 189 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 248
+K + V APA G +N T Y D
Sbjct: 289 -----------------------------QKAKVKLDFV-----APATGAHNYTLYFXSD 314
Query: 249 SWLGCDKRTNLKVKI 263
++ GCD+ V +
Sbjct: 315 AYXGCDQEYKFSVDV 329
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
0.315 0.130 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,323,329
Number of Sequences: 62578
Number of extensions: 282026
Number of successful extensions: 666
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 646
Number of HSP's gapped (non-prelim): 13
length of query: 341
length of database: 14,973,337
effective HSP length: 100
effective length of query: 241
effective length of database: 8,715,537
effective search space: 2100444417
effective search space used: 2100444417
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: 52 (24.6 bits)