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= 001825
(1009 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 81.6 bits (200), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 41/107 (38%), Positives = 64/107 (59%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L +V W +V+DEAQ+IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNP 204
Query: 962 DPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGEDCLL 1008
Y F S PI K ++L+A++ +LRRTK + ++
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTKYDKAII 251
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 10/71 (14%)
Query: 768 FVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGS--LSVLVYHGSSRTKDPCELAK 825
F + K +LV+CP SVL+ W EEL SK + L V+H R+K +L
Sbjct: 77 FSDAKKENELTPSLVICPLSVLKNWEEEL-----SKFAPHLRFAVFH-EDRSK--IKLED 128
Query: 826 FDVVITTYSIV 836
+D+++TTY+++
Sbjct: 129 YDIILTTYAVL 139
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
Length = 500
Score = 81.3 bits (199), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 41/107 (38%), Positives = 64/107 (59%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L +V W +V+DEAQ+IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIXTFLNP 204
Query: 962 DPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGEDCLL 1008
Y F S PI K ++L+A++ +LRRTK + ++
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNXAKEELKAIISPFILRRTKYDKAII 251
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 10/71 (14%)
Query: 768 FVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGS--LSVLVYHGSSRTKDPCELAK 825
F + K +LV+CP SVL+ W EEL SK + L V+H R+K +L
Sbjct: 77 FSDAKKENELTPSLVICPLSVLKNWEEEL-----SKFAPHLRFAVFH-EDRSK--IKLED 128
Query: 826 FDVVITTYSIV 836
+D+++TTY+++
Sbjct: 129 YDIILTTYAVL 139
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 52/110 (47%), Gaps = 14/110 (12%)
Query: 904 KVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDP 963
KVG V+ DE +KN Q A + A+RR +SGTPIQN + + +S F+
Sbjct: 192 KVGL--VICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGI 249
Query: 964 FAVYKSFCSMIKVPI---------SKNPVKGYKKLQAVLKTI---MLRRT 1001
+ F ++PI K+ G +KLQ ++ + ++RRT
Sbjct: 250 LGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRT 299
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 660 DGVLAVPLLRHQR--IALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI---LKERP 714
D VL+ L HQR + W + G I+AD+ GLGKT+ I LI LK+ P
Sbjct: 49 DPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSP 108
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L + W + +DEA +KN + + + + R ++GTP+QN I +L + FL
Sbjct: 363 LGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMP 422
Query: 962 DPFAV 966
F +
Sbjct: 423 GRFTI 427
Score = 33.5 bits (75), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 671 QRIALSWMVQKETSSLHCSG--GILADDQGLGKTISTIALI 709
Q ++WM + L G GILAD+ GLGKT+ T+A I
Sbjct: 241 QLTGINWM-----AFLWSKGDNGILADEMGLGKTVQTVAFI 276
>pdb|2WRG|I Chain I, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|K Chain K, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|M Chain M, Structure Of H1 1918 Hemagglutinin With Human Receptor
Length = 222
Score = 30.8 bits (68), Expect = 4.3, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 502 NGSRQYFPYAQPSTLNKKELDGVK 525
NG+ Y Y++ S LN++E+DGVK
Sbjct: 154 NGTYDYPKYSEESKLNREEIDGVK 177
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 30.0 bits (66), Expect = 6.0, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 519 KELDGVKEDMEAEIKTRSMASHLLKLSPESIQSNSSDCKSHVDDEPDICILEDISQPARS 578
+EL+ K+D EA I+ ++ K E +Q+ + SH++D +LE+ Q
Sbjct: 5 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND-----VLENELQCIIC 59
Query: 579 NQSLVLGKTLSMNRSACS 596
++ + TL+ S CS
Sbjct: 60 SEYFIEAVTLNCAHSFCS 77
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 30.0 bits (66), Expect = 6.2, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 519 KELDGVKEDMEAEIKTRSMASHLLKLSPESIQSNSSDCKSHVDDEPDICILEDISQPARS 578
+EL+ K+D EA I+ ++ K E +Q+ + SH++D +LE+ Q
Sbjct: 5 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND-----VLENELQCIIC 59
Query: 579 NQSLVLGKTLSMNRSACS 596
++ + TL+ S CS
Sbjct: 60 SEYFIEAVTLNCAHSFCS 77
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 30.0 bits (66), Expect = 6.4, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 519 KELDGVKEDMEAEIKTRSMASHLLKLSPESIQSNSSDCKSHVDDEPDICILEDISQPARS 578
+EL+ K+D EA I+ ++ K E +Q+ + SH++D +LE+ Q
Sbjct: 16 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMND-----VLENELQCIIC 70
Query: 579 NQSLVLGKTLSMNRSACS 596
++ + TL+ S CS
Sbjct: 71 SEYFIEAVTLNCAHSFCS 88
>pdb|2WRH|I Chain I, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
pdb|2WRH|K Chain K, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
pdb|2WRH|M Chain M, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
Length = 222
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 502 NGSRQYFPYAQPSTLNKKELDGVK 525
NG+ Y Y++ S LN++E+DGVK
Sbjct: 154 NGTYDYPKYSEESKLNREEIDGVK 177
>pdb|2NV9|A Chain A, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|B Chain B, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|C Chain C, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|D Chain D, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|E Chain E, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|F Chain F, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|G Chain G, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|H Chain H, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
Length = 372
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%)
Query: 166 HFLDHRNTLDFGVLGAKAGIRFGHVGSHIDSRSVDASPSSITENFDERYGHYGASIGNRL 225
H L++ LD V+G + G R++ +S + E + Y IG L
Sbjct: 158 HLLEYAKQLDIEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGL 217
Query: 226 GSSVPEGNLCTYVDVPYTDA 245
+ + EG L TY+ DA
Sbjct: 218 HADIDEGELSTYMSDYINDA 237
>pdb|2NVA|A Chain A, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|B Chain B, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|C Chain C, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|D Chain D, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|E Chain E, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|F Chain F, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|G Chain G, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|H Chain H, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
Length = 372
Score = 30.0 bits (66), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%)
Query: 166 HFLDHRNTLDFGVLGAKAGIRFGHVGSHIDSRSVDASPSSITENFDERYGHYGASIGNRL 225
H L++ LD V+G + G R++ +S + E + Y IG L
Sbjct: 158 HLLEYAKQLDIEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGL 217
Query: 226 GSSVPEGNLCTYVDVPYTDA 245
+ + EG L TY+ DA
Sbjct: 218 HADIDEGELSTYMSDYINDA 237
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 0.132 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,887,908
Number of Sequences: 62578
Number of extensions: 1266256
Number of successful extensions: 1895
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1876
Number of HSP's gapped (non-prelim): 22
length of query: 1009
length of database: 14,973,337
effective HSP length: 108
effective length of query: 901
effective length of database: 8,214,913
effective search space: 7401636613
effective search space used: 7401636613
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (26.2 bits)