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= 040354
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FBN|A Chain A, Crystal Structure Of A Fibrillarin Homologue From
Methanococcus Jannaschii, A Hyperthermophile, At 1.6 A
Length = 230
Score = 29.6 bits (65), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 98 KLLIVFDDVHHPRQIDCLIECLDWFXXXXXXXXXXXDKQAL-ISCGVNKIYQMQ-ELVHA 155
K+ ++++DV P Q + LI+ WF +++ ++ +I++ Q E++ A
Sbjct: 143 KVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGXIAIKARSIDVTKDPKEIFKEQKEILEA 202
Query: 156 DALKLFSEC---AFEGDH 170
K+ E FE DH
Sbjct: 203 GGFKIVDEVDIEPFEKDH 220
>pdb|1G8S|A Chain A, Methanococcus Jannaschii Fibrillarin Pre-Rrna Processing
Protein
Length = 230
Score = 29.6 bits (65), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 5/78 (6%)
Query: 98 KLLIVFDDVHHPRQIDCLIECLDWFXXXXXXXXXXXDKQAL-ISCGVNKIYQMQ-ELVHA 155
K+ ++++DV P Q + LI+ WF +++ ++ +I++ Q E++ A
Sbjct: 143 KVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGMIAIKARSIDVTKDPKEIFKEQKEILEA 202
Query: 156 DALKLFSEC---AFEGDH 170
K+ E FE DH
Sbjct: 203 GGFKIVDEVDIEPFEKDH 220
>pdb|2GAG|A Chain A, Heteroteterameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 12 EVLDWLDDTFQTENNNHLVGIESRTEEIESVLGVG 46
+VLDWL++ QTE + V S TE++ +V VG
Sbjct: 699 DVLDWLEEWLQTEWPDLDVTCTSVTEQLATVAVVG 733
>pdb|2GAH|A Chain A, Heterotetrameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 28.9 bits (63), Expect = 1.6, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 12 EVLDWLDDTFQTENNNHLVGIESRTEEIESVLGVG 46
+VLDWL++ QTE + V S TE++ +V VG
Sbjct: 699 DVLDWLEEWLQTEWPDLDVTCTSVTEQLATVAVVG 733
>pdb|1VRQ|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96 In Complex With Folinic
Acid
pdb|1X31|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96
pdb|3AD7|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Methylthio Acetate
pdb|3AD8|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Pyrrole 2-Carboxylate
pdb|3AD9|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 Sarcosine-Reduced Form
pdb|3ADA|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Sulfite
Length = 964
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 29/65 (44%)
Query: 12 EVLDWLDDTFQTENNNHLVGIESRTEEIESVLGVGSTMNICKLGISGSGDIGKITIAGAI 71
+VLDWL++ QTE V S TE++ +V VG ++ S D+
Sbjct: 698 DVLDWLEEWLQTEWPELDVTCTSVTEQLATVAVVGPRSRDVIAKLASSLDVSNDAFKFMA 757
Query: 72 FNKIT 76
F +T
Sbjct: 758 FQDVT 762
>pdb|3L76|A Chain A, Crystal Structure Of Aspartate Kinase From Synechocystis
pdb|3L76|B Chain B, Crystal Structure Of Aspartate Kinase From Synechocystis
Length = 600
Score = 27.7 bits (60), Expect = 3.5, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 51 ICKLGISGSGDIGKITIAGAIFNKITRRFEEFPNIGLNFQSKRLTRKKLLIVFDDVHHPR 110
I K+ I+G+G IG+ IA +F + ++G+N + + K+ V D R
Sbjct: 355 IAKIAIAGAGMIGRPGIAAKMFKTLA-------DVGVNIEMISTSEVKVSCVIDQRDADR 407
Query: 111 QIDCL 115
I L
Sbjct: 408 AIAAL 412
>pdb|2HIV|A Chain A, Atp-Dependent Dna Ligase From S. Solfataricus
pdb|2HIX|A Chain A, Atp Dependent Dna Ligase From S. Solfataricus Bound To Atp
Length = 621
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 55 GISGSGDIG-KIT-IAGAIFNKITRRFEEFPNIGLNFQSKRL--TRKKLLIVFDDVHHPR 110
G G G G KI+ + A +N T FE + F ++L +KKL+ + DV HPR
Sbjct: 473 GFYGKGKRGGKISSLLMAAYNPKTDSFESVCKVASGFSDEQLDELQKKLMEIKRDVKHPR 532
>pdb|1JWI|A Chain A, Crystal Structure Of Bitiscetin, A Von Willeband Factor-
Dependent Platelet Aggregation Inducer.
pdb|1UEX|A Chain A, Crystal Structure Of Von Willebrand Factor A1 Domain
Complexed With Snake Venom Bitiscetin
Length = 131
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 8 EIFKEVLDWLD-DTFQTENNNHLVGIESRTE 37
++FK+V W D + F EN+ HL I+S+ E
Sbjct: 17 KVFKKVGTWEDAEKFCVENSGHLASIDSKEE 47
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 26.6 bits (57), Expect = 7.4, Method: Composition-based stats.
Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 17/96 (17%)
Query: 1 PESKLIDEIFKEVLDWL---------DDTFQTENNNHLV-----GIESRTEEIESVLGVG 46
P S + + +DWL DD + L+ G+E E I L V
Sbjct: 41 PSSSAESSVIRNYIDWLVALPWTDETDDKLDLKEAGRLLDEEHHGLEKVKERILEYLAVQ 100
Query: 47 STMNICK---LGISGSGDIGKITIAGAIFNKITRRF 79
K L ++G +GK ++A +I + R+F
Sbjct: 101 KLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKF 136
>pdb|1YWG|O Chain O, The Structure Of Glyceraldehyde-3-Phosphate Dehydrogenase
From Plasmodium Falciparum
pdb|1YWG|P Chain P, The Structure Of Glyceraldehyde-3-Phosphate Dehydrogenase
From Plasmodium Falciparum
pdb|1YWG|Q Chain Q, The Structure Of Glyceraldehyde-3-Phosphate Dehydrogenase
From Plasmodium Falciparum
pdb|1YWG|R Chain R, The Structure Of Glyceraldehyde-3-Phosphate Dehydrogenase
From Plasmodium Falciparum
Length = 337
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 8/74 (10%)
Query: 49 MNICKLGISGSGDIGKITIAGAIFNKITRRFEEFPNIGLNFQSKRLTRKKLLIVFDDVHH 108
M + KLGI+G G IG++ A K + + +N L L+ +D VH
Sbjct: 1 MAVTKLGINGFGRIGRLVFRAAFGRK------DIEVVAINDPFMDLNHLCYLLKYDSVHG 54
Query: 109 PRQIDCLIECLDWF 122
Q C + D F
Sbjct: 55 --QFPCEVTHADGF 66
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
0.322 0.140 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,779,472
Number of Sequences: 62578
Number of extensions: 163489
Number of successful extensions: 478
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 473
Number of HSP's gapped (non-prelim): 13
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)