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= 041961
(122 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 109 bits (273), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 54/116 (46%), Positives = 74/116 (63%), Gaps = 2/116 (1%)
Query: 1 KKIRTFVDDEELRRGDEISPALLNAIQGSKISVVVFSKDYASSKWCLNELVKILDCKNMK 60
+ IRTF DD+EL G SP L + I+ S+ +VVV S++YA+S WCL+ELV I+D +
Sbjct: 35 RSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKG 94
Query: 61 GQIIIPVFYGVSPSDVRHQTGIFGLGFGKLEQQFKEQPEMVRKWRDALTESSHLAG 116
++P+FYGV P+ VR QTG+ F K +E PE V KWR ALT + L+G
Sbjct: 95 SITVMPIFYGVEPNHVRWQTGVLAEQFKK--HASREDPEKVLKWRQALTNFAQLSG 148
>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 = 102 bits (255), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 56/116 (48%), Positives = 71/116 (61%), Gaps = 3/116 (2%)
Query: 2 KIRTFVDDEELRRGDEISPALLNAIQGSKISVVVFSKDYASSKWCLNELVKILDCKNMKG 61
KI TF DD+EL +G EI P LL AI SKI V + S YA SKWCL EL +I+ +
Sbjct: 63 KIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDP 122
Query: 62 -QIIIPVFYGVSPSDVRHQTGIFGLGFGKLEQQFKEQPEMVRKWRDALTESSHLAG 116
+II+P+FY V PSDVRHQTG + F K +F Q ++ W+DAL + L G
Sbjct: 123 RRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQ--TIQNWKDALKKVGDLKG 176
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 35/71 (49%)
Query: 6 FVDDEELRRGDEISPALLNAIQGSKISVVVFSKDYASSKWCLNELVKILDCKNMKGQIII 65
+ DD LR GD + ++ + S+ +VV S + +W EL + ++ I+
Sbjct: 51 WYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRIL 110
Query: 66 PVFYGVSPSDV 76
P+++ VS +V
Sbjct: 111 PIWHKVSKDEV 121
>pdb|2JX3|A Chain A, Nmr Solution Structure Of The N-Terminal Domain Of Dek
Length = 131
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 74 SDVRHQTGIF-GLGFGKLEQQFKEQPEMVRKWRDALTES 111
S ++ G F G F K Q+K++ EM++K+R+A+ +S
Sbjct: 44 SSLKKNVGQFSGFPFEKGSVQYKKKEEMLKKFRNAMLKS 82
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 27.7 bits (60), Expect = 1.7, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 41 ASSKWCLNELVKILDCKNMKGQIIIPVFYGVSPSDVRHQTGIFGLGFGKLEQQFKEQP-E 99
A+ + L ++I D + Q ++P + SP D + Q G F EQP E
Sbjct: 527 AAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAFEASLMNTPMVNPEQPVE 586
Query: 100 MVR 102
++R
Sbjct: 587 ILR 589
>pdb|1EJ3|A Chain A, Crystal Structure Of Aequorin
pdb|1EJ3|B Chain B, Crystal Structure Of Aequorin
pdb|1UHI|A Chain A, Crystal Structure Of I-aequorin
pdb|1UHI|B Chain B, Crystal Structure Of I-aequorin
pdb|1UHK|A Chain A, Crystal Structure Of N-Aequorin
pdb|1UHK|B Chain B, Crystal Structure Of N-Aequorin
Length = 191
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 69 YGVSPSDVRHQTGIFGLGFGKLEQQFKEQPEMVRKWRDAL 108
YGV + G L +LE+ K +P ++R W DAL
Sbjct: 75 YGVETDWPAYIEGWKKLATDELEKYAKNEPTLIRIWGDAL 114
>pdb|1UHH|A Chain A, Crystal Structure Of Cp-Aequorin
pdb|1UHH|B Chain B, Crystal Structure Of Cp-Aequorin
pdb|1UHJ|A Chain A, Crystal Structure Of Br-Aequorin
pdb|1UHJ|B Chain B, Crystal Structure Of Br-Aequorin
Length = 191
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 69 YGVSPSDVRHQTGIFGLGFGKLEQQFKEQPEMVRKWRDAL 108
YGV + G L +LE+ K +P ++R W DAL
Sbjct: 75 YGVETDWPAYIEGWKKLATDELEKYAKNEPTLIRIWGDAL 114
>pdb|1ME8|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Rvp Bound
pdb|1ME9|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Imp Bound
pdb|1MEH|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Imp And Moa Bound
Length = 503
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 34 VVFSKDYASSKWCLNELV 51
+VF KDY S+ C NELV
Sbjct: 209 IVFRKDYDRSQVCHNELV 226
>pdb|1ME7|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Rvp And Moa Bound
pdb|1MEI|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Xmp And Mycophenolic Acid
Bound
pdb|1MEW|A Chain A, Inosine Monophosphate Dehydrogenase (Impdh) From
Tritrichomonas Foetus With Xmp And Nad Bound
pdb|1AK5|A Chain A, Inosine Monophosphate Dehydrogenase (impdh) From
Tritrichomonas Foetus
Length = 503
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 34 VVFSKDYASSKWCLNELV 51
+VF KDY S+ C NELV
Sbjct: 209 IVFRKDYDRSQVCHNELV 226
>pdb|3OXO|A Chain A, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|B Chain B, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|C Chain C, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|D Chain D, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|E Chain E, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|F Chain F, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|G Chain G, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
pdb|3OXO|H Chain H, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
Covalently Bound To Coa
Length = 488
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 422 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 464
>pdb|3DLX|A Chain A, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|B Chain B, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|C Chain C, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
pdb|3DLX|D Chain D, Crystal Structure Of Human 3-Oxoacid Coa Transferase 1
Length = 489
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ DV+ TG
Sbjct: 423 TGKQCVNRIITEKAVFDVDKKKGLTLIELWEGLTVDDVQKSTG 465
>pdb|1M3E|A Chain A, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
(Selenomethionine)
pdb|1M3E|B Chain B, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
(Selenomethionine)
pdb|1M3E|C Chain C, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
(Selenomethionine)
pdb|1M3E|D Chain D, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
(Selenomethionine)
Length = 481
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 422 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 464
>pdb|2NRB|A Chain A, C28s Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRB|B Chain B, C28s Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRB|C Chain C, C28s Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRB|D Chain D, C28s Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
Length = 481
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 422 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 464
>pdb|2NRC|A Chain A, C28a Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRC|B Chain B, C28a Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRC|C Chain C, C28a Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|2NRC|D Chain D, C28a Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
Length = 481
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 422 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 464
>pdb|1O9L|A Chain A, Succinate:coenzyme-A Transferase (Pig Heart)
pdb|1O9L|B Chain B, Succinate:coenzyme-A Transferase (Pig Heart)
pdb|1O9L|C Chain C, Succinate:coenzyme-A Transferase (Pig Heart)
pdb|1O9L|D Chain D, Succinate:coenzyme-A Transferase (Pig Heart)
pdb|1OOY|A Chain A, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
pdb|1OOY|B Chain B, Succinyl-Coa:3-Ketoacid Coa Transferase From Pig Heart
pdb|3K6M|A Chain A, Dynamic Domains Of Succinyl-Coa:3-Ketoacid-Coenzyme A
Transferase From Pig Heart.
pdb|3K6M|D Chain D, Dynamic Domains Of Succinyl-Coa:3-Ketoacid-Coenzyme A
Transferase From Pig Heart.
pdb|3K6M|C Chain C, Dynamic Domains Of Succinyl-Coa:3-Ketoacid-Coenzyme A
Transferase From Pig Heart.
pdb|3K6M|B Chain B, Dynamic Domains Of Succinyl-Coa:3-Ketoacid-Coenzyme A
Transferase From Pig Heart
Length = 481
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 422 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 464
>pdb|1OOZ|A Chain A, Deletion Mutant Of Succinyl-coa:3-ketoacid Coa Transferase
From Pig Heart
pdb|1OOZ|B Chain B, Deletion Mutant Of Succinyl-coa:3-ketoacid Coa Transferase
From Pig Heart
pdb|1OPE|A Chain A, Deletion Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
pdb|1OPE|B Chain B, Deletion Mutant Of Succinyl-Coa:3-Ketoacid Coa Transferase
From Pig Heart
Length = 475
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/43 (25%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 42 SSKWCLNELV---KILDCKNMKGQIIIPVFYGVSPSDVRHQTG 81
+ K C+N ++ + D KG +I ++ G++ D++ TG
Sbjct: 416 TGKQCVNRIITEKAVFDVDRKKGLTLIELWEGLTVDDIKKSTG 458
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
0.319 0.136 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,554,257
Number of Sequences: 62578
Number of extensions: 134049
Number of successful extensions: 298
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 287
Number of HSP's gapped (non-prelim): 16
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)