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= 009306
(538 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 108 bits (271), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 62/159 (38%), Positives = 92/159 (57%), Gaps = 5/159 (3%)
Query: 1 MASSSHPYASLTNPEIKYDVFLSFGGEDTRESFTSHLYSALSRETVETFIDDD-LRRGDE 59
++ S++P S P ++Y+VFLSF G DTRE FT LY +L R + TF DDD L +G E
Sbjct: 21 ISDSTNPSGSF--PSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKE 78
Query: 60 ISQSLLDXXXXXXXXXXXXXXXXXXXRWCLDELLKILECKKEYA-QIVVPVFYRVDPSHV 118
I +LL +WCL EL +I+ ++E +I++P+FY VDPS V
Sbjct: 79 IGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDV 138
Query: 119 RKQTGNFGDSFLKLEERFPDK-MQSWRNALTEAADLSGF 156
R QTG + +F K +F + +Q+W++AL + DL G+
Sbjct: 139 RHQTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGW 177
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 108 bits (271), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 65/161 (40%), Positives = 86/161 (53%), Gaps = 4/161 (2%)
Query: 17 KYDVFLSFGGEDTRESFTSHLYSALSRETVETFIDD-DLRRGDEISQSLLDXXXXXXXXX 75
KYDVFLSF G DTR +F S LY L R ++ TF DD +L G S L
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 76 XXXXXXXXXXRWCLDELLKILECKKEYAQIVVPVFYRVDPSHVRKQTGNFGDSFLKLEER 135
WCLDEL+ I++ +K+ + V+P+FY V+P+HVR QTG + F K R
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 136 F-PDKMQSWRNALTEAADLSGFDSLVVSPESALIEEIVNAI 175
P+K+ WR ALT A LSG +S L+++I N I
Sbjct: 128 EDPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEI 166
>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 = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 62/140 (44%), Gaps = 19/140 (13%)
Query: 303 HPRQIKIL-----VGRLDLFASGSRIIITTRDRQVLANC-GVDEVYQME-ELVHDDALRL 355
HPR + IL L F S +I++TTRD+ V + G V +E L + L +
Sbjct: 235 HPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEI 294
Query: 356 FSR--HAFGGDHPHESHTELACKTIKYARGVPLALEVLGRYL--YGKRREVWENAKSKWE 411
S + D P ++H+ IK +G PL + ++G L + R WE + +
Sbjct: 295 LSLFVNMKKADLPEQAHS-----IIKECKGSPLVVSLIGALLRDFPNR---WEYYLKQLQ 346
Query: 412 TAPPKGIQDALKISYDGLDD 431
K I+ + Y+ LD+
Sbjct: 347 NKQFKRIRKSSSYDYEALDE 366
>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 = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 62/140 (44%), Gaps = 19/140 (13%)
Query: 303 HPRQIKIL-----VGRLDLFASGSRIIITTRDRQVLANC-GVDEVYQME-ELVHDDALRL 355
HPR + IL L F S +I++TTRD+ V + G V +E L + L +
Sbjct: 241 HPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEI 300
Query: 356 FSR--HAFGGDHPHESHTELACKTIKYARGVPLALEVLGRYL--YGKRREVWENAKSKWE 411
S + D P ++H+ IK +G PL + ++G L + R WE + +
Sbjct: 301 LSLFVNMKKADLPEQAHS-----IIKECKGSPLVVSLIGALLRDFPNR---WEYYLKQLQ 352
Query: 412 TAPPKGIQDALKISYDGLDD 431
K I+ + Y+ LD+
Sbjct: 353 NKQFKRIRKSSSYDYEALDE 372
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 40/102 (39%), Gaps = 21/102 (20%)
Query: 336 CGVDEVYQMEELVHDDALRLFSRHAFGGDHPHESHTELACKTI-----KYARGVPLALEV 390
C +D+ EL+ L L R+ F P C ++ +Y+R PL
Sbjct: 504 CNMDDFKFSAELIQHIPLSLRVRYVFC-TAPINKKQPFVCSSLLQFARQYSRNEPLTFAW 562
Query: 391 LGRYLYGKRREVWENAKSKWETAPPKGIQDALKIS--YDGLD 430
L RY+ KW PPK I+D + + +D LD
Sbjct: 563 LRRYI-------------KWPLLPPKNIKDLMDLEAVHDVLD 591
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 39/102 (38%), Gaps = 21/102 (20%)
Query: 336 CGVDEVYQMEELVHDDALRLFSRHAFGGDHPHESHTELACKTI-----KYARGVPLALEV 390
C D+ EL+ L L R+ F P C ++ +Y+R PL
Sbjct: 504 CNXDDFKFSAELIQHIPLSLRVRYVFC-TAPINKKQPFVCSSLLQFARQYSRNEPLTFAW 562
Query: 391 LGRYLYGKRREVWENAKSKWETAPPKGIQDA--LKISYDGLD 430
L RY+ KW PPK I+D L+ +D LD
Sbjct: 563 LRRYI-------------KWPLLPPKNIKDLXDLEAVHDVLD 591
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 0.137 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,817,224
Number of Sequences: 62578
Number of extensions: 584855
Number of successful extensions: 1452
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1446
Number of HSP's gapped (non-prelim): 10
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
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: 54 (25.4 bits)