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= 045522
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 63/143 (44%), Gaps = 35/143 (24%)
Query: 125 ISIVGMGGIGKNTLA-QLTSNHDEVKRKFDK-ILWVCV--SDTFDEFRVAKAMVEALDGH 180
++I GM G GK+ LA + +H ++ F + WV + D + + LD
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 209
Query: 181 ES---------------------RLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKI 219
ES R R LL+LDDVWD P+ LK ++ +I
Sbjct: 210 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PW--VLKAFDNQCQI 260
Query: 220 LVTTRKGSVT-SMMGSTDIISVK 241
L+TTR SVT S+MG ++ V+
Sbjct: 261 LLTTRDKSVTDSVMGPKHVVPVE 283
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 61/143 (42%), Gaps = 35/143 (24%)
Query: 125 ISIVGMGGIGKNTLA-QLTSNHDEVKRKFDK-ILWVCV--SDTFDEFRVAKAMVEALDGH 180
++I GM G GK+ LA + +H ++ F + WV V D + + LD
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 209
Query: 181 ES---------------------RLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKI 219
ES R R LL+LDDVWD W LK + +I
Sbjct: 210 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKAFDSQCQI 260
Query: 220 LVTTRKGSVT-SMMGSTDIISVK 241
L+TTR SVT S+MG ++ V+
Sbjct: 261 LLTTRDKSVTDSVMGPKYVVPVE 283
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 61/143 (42%), Gaps = 35/143 (24%)
Query: 125 ISIVGMGGIGKNTLA-QLTSNHDEVKRKFDK-ILWVCV--SDTFDEFRVAKAMVEALDGH 180
++I GM G GK+ LA + +H ++ F + WV V D + + LD
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 215
Query: 181 ES---------------------RLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKI 219
ES R R LL+LDDVWD W LK + +I
Sbjct: 216 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKAFDSQCQI 266
Query: 220 LVTTRKGSVT-SMMGSTDIISVK 241
L+TTR SVT S+MG ++ V+
Sbjct: 267 LLTTRDKSVTDSVMGPKYVVPVE 289
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 62/143 (43%), Gaps = 35/143 (24%)
Query: 125 ISIVGMGGIGKNTLA-QLTSNHDEVKRKFDK-ILWVCV--SDTFDEFRVAKAMVEALDGH 180
++I GM G GK+ LA + +H ++ F + WV + D + + LD
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 216
Query: 181 ES---------------------RLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKI 219
ES R R LL+LDDVWD P+ LK ++ +I
Sbjct: 217 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PW--VLKAFDNQCQI 267
Query: 220 LVTTRKGSVT-SMMGSTDIISVK 241
L+TT SVT S+MG ++ V+
Sbjct: 268 LLTTSDKSVTDSVMGPKHVVPVE 290
>pdb|3KJE|A Chain A, Empty State Of Cooc1
pdb|3KJG|A Chain A, Adp-Bound State Of Cooc1
pdb|3KJG|B Chain B, Adp-Bound State Of Cooc1
pdb|3KJH|A Chain A, Zn-Bound State Of Cooc1
pdb|3KJI|A Chain A, Zn And Adp Bound State Of Cooc1
pdb|3KJI|B Chain B, Zn And Adp Bound State Of Cooc1
Length = 254
Score = 30.8 bits (68), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 8/90 (8%)
Query: 125 ISIVGMGGIGKNTLAQ-----LTSNHDE---VKRKFDKILWVCVSDTFDEFRVAKAMVEA 176
+++ G GG+GK T+A + S++D+ V D L + + +E ++E
Sbjct: 3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPDSCLGQTLGLSIEEAYAITPLIEM 62
Query: 177 LDGHESRLGKRFLLVLDDVWDGDYIKWKPF 206
D + G LL+L+ DGD K+ +
Sbjct: 63 KDEIREKTGDGGLLILNPKVDGDLDKYGRY 92
>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp
pdb|2GJS|B Chain B, The Crystal Structure Of Human Rrad In Complex With Gdp
Length = 176
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 20/106 (18%)
Query: 122 LHIISIVGMGGIGKNTLAQLTSNHDEVKRKFDKILWVCVSDTFDEFRVAKAMVEALDGHE 181
++ + ++G G+GK+ LA++ + D T+D V +DG E
Sbjct: 7 VYKVLLLGAPGVGKSALARIFGGVE------DGPEAEAAGHTYDRSIV-------VDGEE 53
Query: 182 SRLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKILVTTRKGS 227
+ L ++ D+W+ D +W P HC+ G + T KGS
Sbjct: 54 ASL------MVYDIWEQDGGRWLPG-HCMAMGDAYVIVYSVTDKGS 92
>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q72|B Chain B, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7P|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7P|B Chain B, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7Q|A Chain A, Crystal Structure Of Rad G-Domain Q148a-Gtp Analog Complex
pdb|3Q7Q|B Chain B, Crystal Structure Of Rad G-Domain Q148a-Gtp Analog Complex
Length = 166
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 20/106 (18%)
Query: 122 LHIISIVGMGGIGKNTLAQLTSNHDEVKRKFDKILWVCVSDTFDEFRVAKAMVEALDGHE 181
++ + ++G G+GK+ LA++ + D T+D V +DG E
Sbjct: 2 VYKVLLLGAPGVGKSALARIFGGVE------DGPEAEAAGHTYDRSIV-------VDGEE 48
Query: 182 SRLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKILVTTRKGS 227
+ L ++ D+W+ D +W P HC+ G + T KGS
Sbjct: 49 ASL------MVYDIWEQDGGRWLPG-HCMAMGDAYVIVYSVTDKGS 87
>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase
pdb|2DPX|B Chain B, Crystal Structure Of Human Rad Gtpase
Length = 174
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 20/106 (18%)
Query: 122 LHIISIVGMGGIGKNTLAQLTSNHDEVKRKFDKILWVCVSDTFDEFRVAKAMVEALDGHE 181
++ + ++G G+GK+ LA++ + D T+D V +DG E
Sbjct: 7 VYKVLLLGAPGVGKSALARIFGGVE------DGPEAEAAGHTYDRSIV-------VDGEE 53
Query: 182 SRLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKILVTTRKGS 227
+ L ++ D+W+ D +W P HC+ G + T KGS
Sbjct: 54 ASL------MVYDIWEQDGGRWLPG-HCMAMGDAYVIVYSVTDKGS 92
>pdb|3VCA|A Chain A, Quaternary Ammonium Oxidative Demethylation: X-Ray
Crystallographic, Resonance Raman And Uv-Visible
Spectroscopic Analysis Of A Rieske- Type Demethylase
pdb|3VCP|A Chain A, The 2.2 Angstrom Structure Of Stc2 With Proline Bound In
The Active Site
Length = 412
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/67 (22%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 150 RKFDKILWVCVSDTFDEF----RVAKAMVEALDGHESRLGKRFLLVLDDVWDGDYIKWKP 205
R D ++++C+SDT +F ++A+ +E D ++++ ++ W + +
Sbjct: 142 RNLDGLIYICLSDTPPDFQTFAQLARPYLEVHDLKDAKVAFTSTIIEKGNWKLVWENNRE 201
Query: 206 FYHCLKN 212
YHC N
Sbjct: 202 CYHCSSN 208
>pdb|3IZG|G Chain G, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|A Chain A, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|B Chain B, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|C Chain C, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|D Chain D, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|E Chain E, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|3IZG|F Chain F, Bacteriophage T7 Prohead Shell Em-Derived Atomic Model
pdb|2XVR|A Chain A, Phage T7 Empty Mature Head Shell
pdb|2XVR|B Chain B, Phage T7 Empty Mature Head Shell
pdb|2XVR|C Chain C, Phage T7 Empty Mature Head Shell
pdb|2XVR|D Chain D, Phage T7 Empty Mature Head Shell
pdb|2XVR|E Chain E, Phage T7 Empty Mature Head Shell
pdb|2XVR|F Chain F, Phage T7 Empty Mature Head Shell
pdb|2XVR|G Chain G, Phage T7 Empty Mature Head Shell
Length = 345
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 1/80 (1%)
Query: 165 DEFRVAKAMVEALDGHESRLGKRFLLVLDDVWDGDYIKWKPFYHCLKNGLHESKILVTTR 224
D+ + K ++ AL + L K ++ D V+ D + L L+
Sbjct: 176 DQVALGKEIIAALTKARAALTKNYVPAADRVFYCDPDSYSAILAALMPNAANYAALIDPE 235
Query: 225 KGSVTSMMGSTDIISVKELT 244
KGS+ ++MG +++ V LT
Sbjct: 236 KGSIRNVMG-FEVVEVPHLT 254
>pdb|3UNB|J Chain J, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|X Chain X, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|LL Chain l, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|ZZ Chain z, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNE|J Chain J, Mouse Constitutive 20s Proteasome
pdb|3UNE|X Chain X, Mouse Constitutive 20s Proteasome
pdb|3UNE|LL Chain l, Mouse Constitutive 20s Proteasome
pdb|3UNE|ZZ Chain z, Mouse Constitutive 20s Proteasome
pdb|3UNF|J Chain J, Mouse 20s Immunoproteasome In Complex With Pr-957
pdb|3UNF|X Chain X, Mouse 20s Immunoproteasome In Complex With Pr-957
pdb|3UNH|J Chain J, Mouse 20s Immunoproteasome
pdb|3UNH|X Chain X, Mouse 20s Immunoproteasome
Length = 201
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 32/59 (54%)
Query: 127 IVGMGGIGKNTLAQLTSNHDEVKRKFDKILWVCVSDTFDEFRVAKAMVEALDGHESRLG 185
+V + + + Q+ +HD++ + +KIL +CV + D + A+ + + + ++ R G
Sbjct: 14 LVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNG 72
>pdb|1IRU|K Chain K, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|Y Chain Y, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 201
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/59 (22%), Positives = 32/59 (54%)
Query: 127 IVGMGGIGKNTLAQLTSNHDEVKRKFDKILWVCVSDTFDEFRVAKAMVEALDGHESRLG 185
+V + + + Q+ +HD++ + +KIL +CV + D + A+ + + + ++ R G
Sbjct: 14 LVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNG 72
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
0.321 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,173,601
Number of Sequences: 62578
Number of extensions: 221580
Number of successful extensions: 750
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 742
Number of HSP's gapped (non-prelim): 13
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
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: 50 (23.9 bits)