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= 032270
(144 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YDU|A Chain A, Solution Nmr Structure Of At5g01610, An Arabidopsis
Thaliana Protein Containing Duf538 Domain
Length = 170
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 59/118 (50%), Gaps = 12/118 (10%)
Query: 29 ELLAEINLPKGLLPLNDLVEVGYNRATG--FVWLKQKKRTEHKFRSIGRNVSYDTEVTGF 86
ELL E +LP G+ P D ++ T V + +K S+ + + T VTG
Sbjct: 56 ELLKEYDLPIGIFP-GDATNYEFDEETKKLTVLIPSICEVGYKDSSV---LKFTTTVTGH 111
Query: 87 VEDRRMRRLTGVKSKELLIWVSISDIYTDAPDSKKITFANSTGLARSFPISAFELDEN 144
+E ++ + G+K+K ++IWV ++ I TDA K+ F + G+ +S A+ + N
Sbjct: 112 LEKGKLTDVEGIKTK-VMIWVKVTSISTDAS---KVYF--TAGMKKSRSRDAYGVQRN 163
>pdb|4DIK|A Chain A, Flavo Di-Iron Protein H90a Mutant From Thermotoga Maritima
pdb|4DIK|B Chain B, Flavo Di-Iron Protein H90a Mutant From Thermotoga Maritima
Length = 410
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 18/105 (17%)
Query: 56 GFVWLKQKKRTEHKFRSIGR--------NVSYDTEVTGFVEDRRMRRLTGVKSKELLIWV 107
G +W K +R + + S+ + V YD+ + GFVE+ + + +K K V
Sbjct: 241 GLIWKKDPQRLLNHYVSVAKGDPKKGKVTVIYDS-MYGFVENVMKKAIDSLKEKGFTPVV 299
Query: 108 ---------SISDIYTDAPDSKKITFANSTGLARSFPISAFELDE 143
+IS+I D PDS+ + F ST A P+ F L E
Sbjct: 300 YKFSDEERPAISEILKDIPDSEALIFGVSTYEAEIHPLMRFTLLE 344
>pdb|4DIL|A Chain A, Flavo Di-Iron Protein H90n Mutant From Thermotoga Maritima
pdb|4DIL|B Chain B, Flavo Di-Iron Protein H90n Mutant From Thermotoga Maritima
Length = 410
Score = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 18/105 (17%)
Query: 56 GFVWLKQKKRTEHKFRSIGR--------NVSYDTEVTGFVEDRRMRRLTGVKSKELLIWV 107
G +W K +R + + S+ + V YD+ + GFVE+ + + +K K V
Sbjct: 241 GLIWKKDPQRLLNHYVSVAKGDPKKGKVTVIYDS-MYGFVENVMKKAIDSLKEKGFTPVV 299
Query: 108 ---------SISDIYTDAPDSKKITFANSTGLARSFPISAFELDE 143
+IS+I D PDS+ + F ST A P+ F L E
Sbjct: 300 YKFSDEERPAISEILKDIPDSEALIFGVSTYEAEIHPLMRFTLLE 344
>pdb|1VME|A Chain A, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
pdb|1VME|B Chain B, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
Length = 410
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 46/105 (43%), Gaps = 18/105 (17%)
Query: 56 GFVWLKQKKRTEHKFRSIGR--------NVSYDTEVTGFVEDRRMRRLTGVKSKELLIWV 107
G +W K +R + + S+ + V YD+ GFVE+ + + +K K V
Sbjct: 241 GLIWKKDPQRLLNHYVSVAKGDPKKGKVTVIYDSXY-GFVENVXKKAIDSLKEKGFTPVV 299
Query: 108 ---------SISDIYTDAPDSKKITFANSTGLARSFPISAFELDE 143
+IS+I D PDS+ + F ST A P+ F L E
Sbjct: 300 YKFSDEERPAISEILKDIPDSEALIFGVSTYEAEIHPLXRFTLLE 344
>pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
pdb|3QX3|B Chain B, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
Length = 803
Score = 32.3 bits (72), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 83 VTGFVEDRRMRRLTGVKSKELLIWVSISDIYTDAPDSKKITFANSTGLARSFP 135
+T F+EDRR RRL G+ + L + Y D + + I F+NS RS P
Sbjct: 263 LTNFMEDRRQRRLHGLPEQFLYGTATKHLTYNDFINKELILFSNSDN-ERSIP 314
>pdb|4FM9|A Chain A, Human Topoisomerase Ii Alpha Bound To Dna
Length = 763
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 83 VTGFVEDRRMRRLTGVKSKELLIWVSISDIYTDAPDSKKITFANSTGLARSFP 135
+T F+EDRR R+L G+ L + Y D + + I F+NS RS P
Sbjct: 235 LTNFMEDRRQRKLLGLPEDYLYGQTTTYLTYNDFINKELILFSNSDN-ERSIP 286
>pdb|3QO6|A Chain A, Crystal Structure Analysis Of The Plant Protease Deg1
pdb|3QO6|B Chain B, Crystal Structure Analysis Of The Plant Protease Deg1
pdb|3QO6|C Chain C, Crystal Structure Analysis Of The Plant Protease Deg1
Length = 348
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 11/77 (14%)
Query: 45 DLVEVGYNRATGFVWLKQKK--------RTEHKFR-SIGRNVSYDTEVTGFVEDRRMR-- 93
D++EV +GFVW KQ R R ++ ++D +V GF +D+ +
Sbjct: 46 DVLEVPQGSGSGFVWDKQGHIVTNYHVIRGASDLRVTLADQTTFDAKVVGFDQDKDVAVL 105
Query: 94 RLTGVKSKELLIWVSIS 110
R+ K+K I V +S
Sbjct: 106 RIDAPKNKLRPIPVGVS 122
>pdb|2RJZ|A Chain A, Crystal Structure Of The Type 4 Fimbrial Biogenesis
Protein Pilo From Pseudomonas Aeruginosa
pdb|2RJZ|B Chain B, Crystal Structure Of The Type 4 Fimbrial Biogenesis
Protein Pilo From Pseudomonas Aeruginosa
Length = 147
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 59 WLKQKKRTEHKFRSIGRNVSYDTEVTGFVED 89
+ Q K E F ++ R + DTEV G +ED
Sbjct: 20 YKAQMKEMEESFGALLRQLPSDTEVPGLLED 50
>pdb|1Q77|A Chain A, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
pdb|1Q77|B Chain B, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
Length = 138
Score = 26.2 bits (56), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 61 KQKKRTEHKFRSIGRNVSYDTEVTGFVEDR------RMRRLTGVKSKELLIWVSISDIY 113
+ KKR E + R + ++ TE+ G VE R +++ K EL++W Y
Sbjct: 65 ESKKRIERRLREVWEKLTGSTEIPG-VEYRIGPLSEEVKKFVEGKGYELVVWACYPSAY 122
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
0.316 0.133 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,180,270
Number of Sequences: 62578
Number of extensions: 155529
Number of successful extensions: 288
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 279
Number of HSP's gapped (non-prelim): 13
length of query: 144
length of database: 14,973,337
effective HSP length: 89
effective length of query: 55
effective length of database: 9,403,895
effective search space: 517214225
effective search space used: 517214225
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 46 (22.3 bits)