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= 029879
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PFD|A Chain A, Anisotropically Refined Structure Of Ftcd
pdb|2PFD|B Chain B, Anisotropically Refined Structure Of Ftcd
pdb|2PFD|C Chain C, Anisotropically Refined Structure Of Ftcd
pdb|2PFD|D Chain D, Anisotropically Refined Structure Of Ftcd
Length = 541
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 52/114 (45%), Gaps = 19/114 (16%)
Query: 13 VPVFLY--AAAHPTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPNEGPIQVSPA 70
VPV+LY AA P+ + L IR G Y + A W P+ GP P+
Sbjct: 121 VPVYLYGEAAQXPSRQTLPAIR--AGEYEALPEKLKQAEWV--------PDFGPSSFVPS 170
Query: 71 RGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSARG------GGLPTVQTLG 118
G + GAR ++ +NI ++ST A RIA + +G G L VQ +G
Sbjct: 171 WGATVTGARKFLIAFNINLLSTKEQA-HRIALNLREQGRGKDQPGRLKKVQGIG 223
>pdb|1TT9|A Chain A, Structure Of The Bifunctional And Golgi Associated
Formiminotransferase Cyclodeaminase Octamer
pdb|1TT9|B Chain B, Structure Of The Bifunctional And Golgi Associated
Formiminotransferase Cyclodeaminase Octamer
pdb|1TT9|C Chain C, Structure Of The Bifunctional And Golgi Associated
Formiminotransferase Cyclodeaminase Octamer
pdb|1TT9|D Chain D, Structure Of The Bifunctional And Golgi Associated
Formiminotransferase Cyclodeaminase Octamer
Length = 541
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 52/114 (45%), Gaps = 19/114 (16%)
Query: 13 VPVFLY--AAAHPTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPNEGPIQVSPA 70
VPV+LY AA P+ + L IR G Y + A W P+ GP P+
Sbjct: 121 VPVYLYGEAAQXPSRQTLPAIR--AGEYEALPEKLKQAEWV--------PDFGPSSFVPS 170
Query: 71 RGIAMIGARPWVALYNIPIMSTDVAATRRIARMVSARG------GGLPTVQTLG 118
G + GAR ++ +NI ++ST A RIA + +G G L VQ +G
Sbjct: 171 WGATVTGARKFLIAFNINLLSTKEQA-HRIALNLREQGRGKDQPGRLKKVQGIG 223
>pdb|1QD1|A Chain A, The Crystal Structure Of The Formiminotransferase Domain
Of Formiminotransferase-Cyclodeaminase.
pdb|1QD1|B Chain B, The Crystal Structure Of The Formiminotransferase Domain
Of Formiminotransferase-Cyclodeaminase
Length = 325
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 61/153 (39%), Gaps = 16/153 (10%)
Query: 13 VPVFLYAAAHPTGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPNEGPIQVSPARG 72
VPV+LY A T G Y + A W P+ GP P+ G
Sbjct: 120 VPVYLYGEAARTAGRQSLPALRAGEYEALPEKLKQAEWA--------PDFGPSAFVPSWG 171
Query: 73 IAMIGARPWVALYNIPIMSTDVAATRRIARMVSARG------GGLPTVQTLGLVHGEDS- 125
+ GAR ++ +NI ++ST A RIA + +G G L VQ +G E +
Sbjct: 172 ATVAGARKFLLAFNINLLSTREQA-HRIALDLREQGRGKDQPGRLKKVQAIGWYLDEKNL 230
Query: 126 TEIACMLLEPNQVGADRVQNRVEKLAAEEGLDV 158
+++ LL+ G V + A E L V
Sbjct: 231 AQVSTNLLDFEVTGLHTVFEETCREAQELSLPV 263
>pdb|1L9M|A Chain A, Three-Dimensional Structure Of The Human Transglutaminase
3 Enzyme: Binding Of Calcium Ions Change Structure For
Activation
pdb|1L9M|B Chain B, Three-Dimensional Structure Of The Human Transglutaminase
3 Enzyme: Binding Of Calcium Ions Change Structure For
Activation
pdb|1L9N|A Chain A, Three-Dimensional Structure Of The Human Transglutaminase
3 Enzyme: Binding Of Calcium Ions Change Structure For
Activation
pdb|1L9N|B Chain B, Three-Dimensional Structure Of The Human Transglutaminase
3 Enzyme: Binding Of Calcium Ions Change Structure For
Activation
pdb|1NUD|A Chain A, Role Of Calcium Ions In The Activation And Activity Of The
Transglutaminase 3 Enzyme (3 Calciums, Active Form)
pdb|1NUD|B Chain B, Role Of Calcium Ions In The Activation And Activity Of The
Transglutaminase 3 Enzyme (3 Calciums, Active Form)
pdb|1NUF|A Chain A, Role Of Calcium Ions In The Activation And Activity Of The
Transglutaminase 3 Enzyme
pdb|1NUG|A Chain A, Role Of Calcium Ions In The Activation And Activity Of The
Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive
Form)
pdb|1NUG|B Chain B, Role Of Calcium Ions In The Activation And Activity Of The
Transglutaminase 3 Enzyme (2 Calciums, 1 Mg, Inactive
Form)
Length = 692
Score = 30.4 bits (67), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 41/86 (47%), Gaps = 13/86 (15%)
Query: 23 PTGKPLDTIRREL--------GYYRPNSMGNQWAGWTMPEILPERPNEGPIQVSPARGIA 74
P G PLD + G++ + +G + GW + + P+ ++G Q PA +
Sbjct: 314 PMGNPLDKGSDSVWNFHVWNEGWFVRSDLGPSYGGWQVLDATPQERSQGVFQCGPA---S 370
Query: 75 MIGARPW-VAL-YNIPIMSTDVAATR 98
+IG R V L +++P + +V A R
Sbjct: 371 VIGVREGDVQLNFDMPFIFAEVNADR 396
>pdb|3OQC|A Chain A, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
pdb|3OQC|B Chain B, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
Length = 481
Score = 29.6 bits (65), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 25/42 (59%)
Query: 108 GGGLPTVQTLGLVHGEDSTEIACMLLEPNQVGADRVQNRVEK 149
GGG+ LG+ E + +I ++L+P+ GA+ +Q +EK
Sbjct: 412 GGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEK 453
>pdb|1JS1|X Chain X, Crystal Structure Of A New Transcarbamylase From The
Anaerobic Bacterium Bacteroides Fragilis At 2.0 A
Resolution
pdb|1JS1|Y Chain Y, Crystal Structure Of A New Transcarbamylase From The
Anaerobic Bacterium Bacteroides Fragilis At 2.0 A
Resolution
pdb|1JS1|Z Chain Z, Crystal Structure Of A New Transcarbamylase From The
Anaerobic Bacterium Bacteroides Fragilis At 2.0 A
Resolution
Length = 324
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 61 NEGPIQVSPARGIAMIGARPWVALYNIPIMS--TDVAATRRIARM 103
N+G ++ RG+ M G +P L IP+M D+ R AR
Sbjct: 71 NQGAWKLETERGVIMDGDKPEHLLEAIPVMGCYCDIIGVRSFARF 115
>pdb|2FG6|X Chain X, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG6|Y Chain Y, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG6|Z Chain Z, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG6|C Chain C, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG6|D Chain D, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG6|E Chain E, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Sulfate And N-Succinyl-L-Norvaline
pdb|2FG7|X Chain X, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
pdb|2FG7|Y Chain Y, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
pdb|2FG7|Z Chain Z, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
pdb|2FG7|C Chain C, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
pdb|2FG7|D Chain D, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
pdb|2FG7|E Chain E, N-Succinyl-L-Ornithine Transcarbamylase From B. Fragilis
Complexed With Carbamoyl Phosphate And
N-Succinyl-L-Norvaline
Length = 338
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 61 NEGPIQVSPARGIAMIGARPWVALYNIPIMS--TDVAATRRIARM 103
N+G ++ RG+ M G +P L IP+M D+ R AR
Sbjct: 91 NQGAWKLETERGVIMDGDKPEHLLEAIPVMGCYCDIIGVRSFARF 135
>pdb|1NDH|A Chain A, Crystal Structure Of Nadh-Cytochrome B5 Reductase From Pig
Liver At 2.4 Angstroms Resolution
Length = 272
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 91 STDVAATRRIARMVSARGGGLPTVQTLGLVHGEDSTEIACMLLEPNQVGAD-RVQNRVEK 149
S+ V T + M++ G P +Q + + + C LL NQ D ++ +E+
Sbjct: 136 SSPVIKTVKSVGMIAGGTGITPMLQVIRAIMKDPDDHTVCHLLFANQTEKDILLRPELEE 195
Query: 150 LAAEEGLDVEKGYFTDFSPE 169
L E + Y D +PE
Sbjct: 196 LRNEHSARFKLWYTVDRAPE 215
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%)
Query: 24 TGKPLDTIRRELGYYRPNSMGNQWAGWTMPEILPERPN 61
TG+ + RR L R ++ AGW E+LP PN
Sbjct: 407 TGRDRERFRRALEASRTIGHRDELAGWRERELLPGTPN 444
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 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,818,438
Number of Sequences: 62578
Number of extensions: 247026
Number of successful extensions: 545
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 537
Number of HSP's gapped (non-prelim): 20
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
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: 48 (23.1 bits)