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= 030208
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GM3|A Chain A, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
pdb|2GM3|B Chain B, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
pdb|2GM3|C Chain C, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
pdb|2GM3|D Chain D, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
pdb|2GM3|E Chain E, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
pdb|2GM3|F Chain F, Crystal Structure Of An Universal Stress Protein Family
Protein From Arabidopsis Thaliana At3g01520 With Amp
Bound
Length = 175
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 37/67 (55%)
Query: 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169
+A I GD VIC+E +R++P +V+GSRG G Q V G+V +C+ H + +
Sbjct: 104 EAWIKTGDPKDVICQEVKRVRPDFLVVGSRGLGRFQKVFVGTVSAFCVKHAECPVXTIKR 163
Query: 170 GKGTSPS 176
+PS
Sbjct: 164 NADETPS 170
>pdb|3CIS|A Chain A, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|B Chain B, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|C Chain C, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|D Chain D, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|E Chain E, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|F Chain F, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|G Chain G, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
pdb|3CIS|H Chain H, The Crystal Structure Of Rv2623 From Mycobacterium
Tuberculosis
Length = 309
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 39/136 (28%), Positives = 62/136 (45%), Gaps = 18/136 (13%)
Query: 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ----IVYDMSQGLMEKLAI 99
+L+ VD S+ A A R + +HA S V I + +Q + E++
Sbjct: 174 VLVGVDGSSASELATAIAFDEASRRNVDLVALHAWSDVDVSEWPGIDWPATQSMAEQVLA 233
Query: 100 EAM--------DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGS 151
E + +VA+ R +V A+ + + +E + VV+GSRGRG +L GS
Sbjct: 234 ERLAGWQERYPNVAITRV---VVRDQPARQLVQRSEEAQ--LVVVGSRGRGGYAGMLVGS 288
Query: 152 VGEYCLHHCKTAPIIV 167
VGE +T P+IV
Sbjct: 289 VGETVAQLART-PVIV 303
>pdb|2JAX|A Chain A, Universal Stress Protein Rv2623 From Mycobaterium
Tuberculosis
Length = 305
Score = 36.2 bits (82), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 44/91 (48%), Gaps = 10/91 (10%)
Query: 77 AVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVI 136
A S Q++ + G E+ +VA+ R +V A+ + + +E + VV+
Sbjct: 211 ATQSXAEQVLAERLAGWQERYP----NVAITRV---VVRDQPARQLVQRSEEAQ--LVVV 261
Query: 137 GSRGRGLIQSVLQGSVGEYCLHHCKTAPIIV 167
GSRGRG L GSVGE +T P+IV
Sbjct: 262 GSRGRGGYAGXLVGSVGETVAQLART-PVIV 291
>pdb|1MJH|A Chain A, Structure-Based Assignment Of The Biochemical Function Of
Hypothetical Protein Mj0577: A Test Case Of Structural
Genomics
pdb|1MJH|B Chain B, Structure-Based Assignment Of The Biochemical Function Of
Hypothetical Protein Mj0577: A Test Case Of Structural
Genomics
Length = 162
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 49/103 (47%), Gaps = 5/103 (4%)
Query: 74 LVHAVSSVQNQIVYDMSQ---GLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLK 130
L +V +N++ +++ ME + E DV + K IV G + I K AE
Sbjct: 62 LNKSVEEFENELKNKLTEEAKNKMENIKKELEDVGF-KVKDIIVVGIPHEEIVKIAEDEG 120
Query: 131 PAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173
+++GS G+ ++ +L GSV E + P++VV K +
Sbjct: 121 VDIIIMGSHGKTNLKEILLGSVTENVIKKS-NKPVLVVKRKNS 162
>pdb|3OLQ|A Chain A, The Crystal Structure Of A Universal Stress Protein E From
Proteus Mirabilis Hi4320
Length = 319
Score = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169
K + EG +VI + E L VV+G GR + + G+ E + H K + + P
Sbjct: 246 KTHVKEGLPEQVIPQVCEELNAGIVVLGILGRTGLSAAFLGNTAEQLIDHIKCDLLAIKP 305
Query: 170 GKGTSPSCI 178
T P +
Sbjct: 306 DGFTCPITV 314
>pdb|3LOQ|A Chain A, The Crystal Structure Of A Universal Stress Protein From
Archaeoglobus Fulgidus Dsm 4304
pdb|3LOQ|B Chain B, The Crystal Structure Of A Universal Stress Protein From
Archaeoglobus Fulgidus Dsm 4304
Length = 294
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 22/117 (18%), Positives = 45/117 (38%), Gaps = 8/117 (6%)
Query: 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMD 103
+L+A D + A ++A + + +H++H + D + ++ E +
Sbjct: 173 VLVAYDFSKWADRALEYAKFVVKKTGGELHIIH--------VSEDGDKTADLRVXEEVIG 224
Query: 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHC 160
+ I G K I + E + + GSRG G + + + GS E +
Sbjct: 225 AEGIEVHVHIESGTPHKAILAKREEINATTIFXGSRGAGSVXTXILGSTSESVIRRS 281
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCK 161
GD I K +E + + GSRG + +L GSV E LH K
Sbjct: 111 GDPVVEIIKASENY--SFIAXGSRGASKFKKILLGSVSEGVLHDSK 154
>pdb|1WJG|A Chain A, Crystal Structure Of A Probable Atp Binding Protein From
Thermus Themophilus Hb8
pdb|2Z08|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermus Thermophilus Hb8
pdb|2Z09|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermus Thermophilus Hb8
pdb|2Z3V|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Thermus Thermophilus Hb8
Length = 137
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 108 RTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGS 151
+ A ++EG A+ I + A K +V+G+RG G + S+ GS
Sbjct: 77 KEDALLLEGVPAEAILQAARAEKADLIVMGTRGLGALGSLFLGS 120
>pdb|3TNJ|A Chain A, Crystal Structure Of Universal Stress Protein From
Nitrosomonas Europaea With Amp Bound
Length = 150
Score = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 113 IVEGDAAKVICKEAERLKPAAVVIGSRGR-GLIQSVLQGSVGEYCLHHCK 161
+V G+ + I + AE+ +V+GS GR GL ++L GS LH+ K
Sbjct: 92 LVWGEPREEIIRIAEQENVDLIVVGSHGRHGL--ALLLGSTANSVLHYAK 139
>pdb|2PFS|A Chain A, Crystal Structure Of Universal Stress Protein From
Nitrosomonas Europaea
Length = 150
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 113 IVEGDAAKVICKEAERLKPAAVVIGSRGR-GLIQSVLQGSVGEYCLHHCK 161
+V G+ + I + AE+ +V+GS GR GL ++L GS LH+ K
Sbjct: 92 LVWGEPREEIIRIAEQENVDLIVVGSHGRHGL--ALLLGSTANSVLHYAK 139
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 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,843,973
Number of Sequences: 62578
Number of extensions: 155943
Number of successful extensions: 453
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 443
Number of HSP's gapped (non-prelim): 14
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
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)