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= 030138
(182 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I6K|A Chain A, Crystal Structure Of Human Type I Ipp Isomerase Complexed
With A Substrate Analog
pdb|2I6K|B Chain B, Crystal Structure Of Human Type I Ipp Isomerase Complexed
With A Substrate Analog
Length = 235
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/62 (59%), Positives = 45/62 (72%), Gaps = 2/62 (3%)
Query: 78 MDAVQRRLMFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELL 137
+D Q +L+ E CIL+DEND +G E K NCHL E IE LLHRAFSVFLFN++ +LL
Sbjct: 17 LDKQQVQLLAE-XCILIDENDNKIGAETKKNCHLNENIEK-GLLHRAFSVFLFNTENKLL 74
Query: 138 LQ 139
LQ
Sbjct: 75 LQ 76
>pdb|2PNY|A Chain A, Structure Of Human Isopentenyl-Diphosphate Delta-Isomerase
2
Length = 246
Score = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 36/68 (52%), Positives = 47/68 (69%), Gaps = 3/68 (4%)
Query: 74 TDAGMDAVQRRLM--FEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFN 131
+D +D V RR + E+ I+VDEND+V+G + K NCHL E IE LLHRAFSV LFN
Sbjct: 21 SDINLDWVDRRQLQRLEEMLIVVDENDKVIGADTKRNCHLNENIEK-GLLHRAFSVVLFN 79
Query: 132 SKYELLLQ 139
+K +L+Q
Sbjct: 80 TKNRILIQ 87
>pdb|2ICJ|A Chain A, The Crystal Structure Of Human Isopentenyl Diphophate
Isomerase
pdb|2ICK|A Chain A, Human Isopentenyl Diphophate Isomerase Complexed With
Substrate Analog
Length = 233
Score = 68.2 bits (165), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 37/62 (59%), Positives = 45/62 (72%), Gaps = 2/62 (3%)
Query: 78 MDAVQRRLMFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELL 137
+D Q +L+ E CIL+DEND +G E K NCHL E IE LLHRAFSVFLFN++ +LL
Sbjct: 15 LDKQQVQLLAE-MCILIDENDNKIGAETKKNCHLNENIEK-GLLHRAFSVFLFNTENKLL 72
Query: 138 LQ 139
LQ
Sbjct: 73 LQ 74
>pdb|2DHO|A Chain A, Crystal Structure Of Human Ipp Isomerase I In Space Group
P212121
Length = 235
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 37/62 (59%), Positives = 45/62 (72%), Gaps = 2/62 (3%)
Query: 78 MDAVQRRLMFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELL 137
+D Q +L+ E CIL+DEND +G E K NCHL E IE LLHRAFSVFLFN++ +LL
Sbjct: 17 LDKQQVQLLAE-MCILIDENDNKIGAETKKNCHLNENIEK-GLLHRAFSVFLFNTENKLL 74
Query: 138 LQ 139
LQ
Sbjct: 75 LQ 76
>pdb|3HYQ|A Chain A, Crystal Structure Of Isopentenyl-Diphosphate
Delta-Isomerase From Salmonella Entericase
Length = 184
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 88 EDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
E+ +L+DE D+ G KY H + LH AFS +LFN +LL+
Sbjct: 6 EEHVVLLDEQDKPSGTLEKYAAHTLN-----TPLHLAFSCWLFNEDGQLLV 51
>pdb|1Q54|A Chain A, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex With The Bromohydrine Of Ipp
pdb|1Q54|B Chain B, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex With The Bromohydrine Of Ipp
pdb|1OW2|A Chain A, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex Of C67a Mutant With Eipp
pdb|1OW2|B Chain B, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex Of C67a Mutant With Eipp
Length = 183
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1R67|A Chain A, Y104a Mutant Of E.coli Ipp Isomerase
Length = 190
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1X84|A Chain A, Ipp Isomerase (Wt) Reacted With (S)-Bromohydrine Of Ipp
pdb|1X84|B Chain B, Ipp Isomerase (Wt) Reacted With (S)-Bromohydrine Of Ipp
Length = 189
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1NFS|A Chain A, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-dimethylallylpyrophosphate
Isomerase: Complex With Nipp
pdb|1NFS|B Chain B, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-dimethylallylpyrophosphate
Isomerase: Complex With Nipp
pdb|1NFZ|A Chain A, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex With Eipp
pdb|1NFZ|B Chain B, Structure And Mechanism Of Action Of
Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase: Complex With Eipp
pdb|1PPV|A Chain A, Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase In Complex With The Bromohydrine Of Ipp
pdb|1PPV|B Chain B, Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase In Complex With The Bromohydrine Of Ipp
pdb|1PPW|A Chain A, Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase In Complex With The Bromohydrine Of Ipp
pdb|1PPW|B Chain B, Isopentenylpyrophosphate-Dimethylallylpyrophosphate
Isomerase In Complex With The Bromohydrine Of Ipp
pdb|1PVF|A Chain A, E.coli Ipp Isomerase In Complex With Diphosphate
pdb|1PVF|B Chain B, E.coli Ipp Isomerase In Complex With Diphosphate
pdb|2VNP|A Chain A, Monoclinic Form Of Idi-1
pdb|2VNP|B Chain B, Monoclinic Form Of Idi-1
pdb|2VNQ|A Chain A, Monoclinic Form Of Idi-1
pdb|2VNQ|B Chain B, Monoclinic Form Of Idi-1
Length = 183
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1X83|A Chain A, Y104f Ipp Isomerase Reacted With (S)-Bromohydrine Of Ipp
pdb|1X83|B Chain B, Y104f Ipp Isomerase Reacted With (S)-Bromohydrine Of Ipp
Length = 189
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|2G73|A Chain A, Y104f Mutant Type 1 Ipp Isomerase Complex With Eipp
pdb|2G73|B Chain B, Y104f Mutant Type 1 Ipp Isomerase Complex With Eipp
pdb|2G74|A Chain A, Y104f Mutant Of Type 1 Isopentenylpyrophosphate-
Dimethylallylpyrophosphate Isomerase
pdb|2G74|B Chain B, Y104f Mutant Of Type 1 Isopentenylpyrophosphate-
Dimethylallylpyrophosphate Isomerase
pdb|2B2K|A Chain A, Structure Of Y104f Idi-1 Mutant In Complex With Eipp
pdb|2B2K|B Chain B, Structure Of Y104f Idi-1 Mutant In Complex With Eipp
Length = 183
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1HX3|A Chain A, Crystal Structure Of E.Coli Isopentenyl
Diphosphate:dimethylallyl Diphosphate Isomerase
pdb|1HX3|B Chain B, Crystal Structure Of E.Coli Isopentenyl
Diphosphate:dimethylallyl Diphosphate Isomerase
Length = 190
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1HZT|A Chain A, Crystal Structure Of Metal-Free Isopentenyl
Diphosphate:dimethylallyl Diphosphate Isomerase
Length = 190
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 86 MFEDECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
M + IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 1 MQTEHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|1I9A|A Chain A, Structural Studies Of Cholesterol Biosynthesis: Mevalonate
5-Diphosphate Decarboxylase And Isopentenyl Diphosphate
Isomerase
pdb|1I9A|B Chain B, Structural Studies Of Cholesterol Biosynthesis: Mevalonate
5-Diphosphate Decarboxylase And Isopentenyl Diphosphate
Isomerase
Length = 182
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 89 DECILVDENDRVVGHENKYNCHLMEKIESLNLLHRAFSVFLFNSKYELLL 138
+ IL++ G KY H + LH AFS +LFN+K +LL+
Sbjct: 4 EHVILLNAQGVPTGTLEKYAAHTAD-----TRLHLAFSSWLFNAKGQLLV 48
>pdb|2KMC|A Chain A, Solution Structure Of The N-Terminal Domain Of Kindlin-1
Length = 102
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 143 FCILW-VKTCLSMDCHWVVQICGLTWEMTDSNILFVMTHK 181
+ + W K C + HW + CG+ D+N+LF HK
Sbjct: 65 YALWWEQKRCWLLKTHWTLDKCGV---QADANLLFTPQHK 101
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
0.327 0.135 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,684,463
Number of Sequences: 62578
Number of extensions: 114568
Number of successful extensions: 244
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 17
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 48 (23.1 bits)