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= 019751
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 59/253 (23%), Positives = 101/253 (39%), Gaps = 66/253 (26%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK--- 66
+GWL PA+ +EL+Q + QA+ + QLPHFT IK+ K
Sbjct: 1531 SNGWLSPALAAMELAQMVTQAM-----------WSKDSYLKQLPHFTSEHIKRCTDKGVE 1579
Query: 67 ---ELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 123
++ +M ++R LL + +++ DV P++ I+ G
Sbjct: 1580 SVFDIMEMEDEERNALLQ----LTDSQIADVARFCNRYPNI--ELSYEVVDKDSIRSGGP 1633
Query: 124 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 183
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++ +
Sbjct: 1634 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKR---------L 1681
Query: 184 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 243
T KA KV+ APA G +N T Y + D
Sbjct: 1682 TLQQKA------------------------KVKLD-------FVAPATGAHNYTLYFMSD 1710
Query: 244 SWLGCDKRTNLKV 256
+++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 = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 59/253 (23%), Positives = 101/253 (39%), Gaps = 66/253 (26%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK--- 66
+GWL PA+ +EL+Q + QA+ + QLPHFT IK+ K
Sbjct: 1531 SNGWLSPALAAMELAQMVTQAM-----------WSKDSYLKQLPHFTSEHIKRCTDKGVE 1579
Query: 67 ---ELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 123
++ +M ++R LL + +++ DV P++ I+ G
Sbjct: 1580 SVFDIMEMEDEERNALLQ----LTDSQIADVARFCNRYPNI--ELSYEVVDKDSIRSGGP 1633
Query: 124 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 183
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++ +
Sbjct: 1634 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKR---------L 1681
Query: 184 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 243
T KA KV+ APA G +N T Y + D
Sbjct: 1682 TLQQKA------------------------KVKLD-------FVAPATGAHNYTLYFMSD 1710
Query: 244 SWLGCDKRTNLKV 256
+++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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 54/264 (20%), Positives = 101/264 (38%), Gaps = 65/264 (24%)
Query: 1 MAVIPRTAQGHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVI 60
+ V+ +G+L A ++L+Q +IQ G + P Q+PHF ++
Sbjct: 123 INVVVDILSANGYLN-ATTAMDLAQMLIQ-----------GVWDVDNPLRQIPHFNNKIL 170
Query: 61 KK---IARKELRD-MSLQD--RAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXX 114
+K I + + D M+L+D R E+L+ + +++ V + P++
Sbjct: 171 EKCKEINVETVYDIMALEDEERDEILT----LTDSQLAQVAAFVNNYPNVELTYSLNNSD 226
Query: 115 XXXIQEGDIVTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKV 174
+TIQ ++ N + + YPF K E++W +L + ++ +KV
Sbjct: 227 SLISGVKQKITIQLTRDVEPENLQVTS----EKYPFDKLESWWLVLGEVSKKELYAIKKV 282
Query: 175 SFMDEPAAITAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNY 234
+ KET E P G +
Sbjct: 283 TLN------------------------KETQQYELE---------------FDTPTSGKH 303
Query: 235 NLTCYCLCDSWLGCDKRTNLKVKI 258
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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 53/264 (20%), Positives = 100/264 (37%), Gaps = 65/264 (24%)
Query: 1 MAVIPRTAQGHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVI 60
+ V+ +G+L A +L+Q +IQ G + P Q+PHF ++
Sbjct: 113 INVVVDILSANGYLN-ATTAXDLAQXLIQ-----------GVWDVDNPLRQIPHFNNKIL 160
Query: 61 KK---IARKELRDM-SLQD--RAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXX 114
+K I + + D+ +L+D R E+L+ + +++ V + P++
Sbjct: 161 EKCKEINVETVYDIXALEDEERDEILT----LTDSQLAQVAAFVNNYPNVELTYSLNNSD 216
Query: 115 XXXIQEGDIVTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKV 174
+TIQ ++ N + + YPF K E++W +L + ++ +KV
Sbjct: 217 SLISGVKQKITIQLTRDVEPENLQVTS----EKYPFDKLESWWLVLGEVSKKELYAIKKV 272
Query: 175 SFMDEPAAITAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNY 234
+ KET E P G +
Sbjct: 273 TLN------------------------KETQQYELE---------------FDTPTSGKH 293
Query: 235 NLTCYCLCDSWLGCDKRTNLKVKI 258
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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 55/255 (21%), Positives = 96/255 (37%), Gaps = 66/255 (25%)
Query: 10 GHGWLRPAVGVVELSQSIIQAVPLSSRKATGGSTEGTAPFLQLPHFTEAVIKKIARK--- 66
+GWL PA+ EL+Q + QA + QLPHFT IK+ K
Sbjct: 135 SNGWLSPALAAXELAQXVTQA-----------XWSKDSYLKQLPHFTSEHIKRCTDKGVE 183
Query: 67 ---ELRDMSLQDRAELLSQVGGFSSTEVQDVEMVLQMMPSLXXXXXXXXXXXXXIQEGDI 123
++ + ++R LL + +++ DV P++ I+ G
Sbjct: 184 SVFDIXEXEDEERNALLQ----LTDSQIADVARFCNRYPNIELSYEVVDKDS--IRSGGP 237
Query: 124 VTIQAWVTLKRGNGLIGALPHAPYYPFHKEENFWFLLADSVSNNVWFSQKVSFMDEPAAI 183
V + V L+R + G + AP +P +EE +W ++ D+ SN++ ++++
Sbjct: 238 VVV--LVQLEREEEVTGPVI-APLFPQKREEGWWVVIGDAKSNSLISIKRLTLQ------ 288
Query: 184 TAASKAIEDTMEGSGATVKETSAAVREAAEKVRSGSRLVMGKIQAPAEGNYNLTCYCLCD 243
+K + V APA G +N T Y D
Sbjct: 289 -----------------------------QKAKVKLDFV-----APATGAHNYTLYFXSD 314
Query: 244 SWLGCDKRTNLKVKI 258
++ 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
0.314 0.130 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,232,893
Number of Sequences: 62578
Number of extensions: 279114
Number of successful extensions: 505
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: 487
Number of HSP's gapped (non-prelim): 11
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)