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= 029494
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PUG|A Chain A, Structure Of E. Coli Ybab
pdb|1PUG|B Chain B, Structure Of E. Coli Ybab
pdb|1PUG|C Chain C, Structure Of E. Coli Ybab
pdb|1PUG|D Chain D, Structure Of E. Coli Ybab
Length = 109
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 54/105 (51%), Gaps = 4/105 (3%)
Query: 83 GNMQNLYETVKKAQMVVQVEAVRVQKELAAAEFDGYCEGELIKVTLSGNQQPVRTEITEA 142
G + NL + ++ Q +Q ++Q+E+A E G L+KVT++G R EI +
Sbjct: 5 GGLGNLMKQAQQMQEKMQ----KMQEEIAQLEVTGESGAGLVKVTINGAHNCRRVEIDPS 60
Query: 143 AMELGAEKLSLLVTEAYKDAHQKSVLAMKERMSDLAQSLGMPQGL 187
+E E L LV A+ DA ++ KE+M+ ++ + +P G
Sbjct: 61 LLEDDKEMLEDLVAAAFNDAARRIEETQKEKMASVSSGMQLPPGF 105
>pdb|1J8B|A Chain A, Structure Of Ybab From Haemophilus Influenzae (Hi0442), A
Protein Of Unknown Function
Length = 112
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 36/77 (46%)
Query: 110 LAAAEFDGYCEGELIKVTLSGNQQPVRTEITEAAMELGAEKLSLLVTEAYKDAHQKSVLA 169
+A E G L+K+T++G R +I + E E L L+ A+ DA +++
Sbjct: 31 IAQLEVTGESGAGLVKITINGAHNCRRIDIDPSLXEDDKEXLEDLIAAAFNDAVRRAEEL 90
Query: 170 MKERMSDLAQSLGMPQG 186
KE+ + + +P G
Sbjct: 91 QKEKXASVTAGXPLPPG 107
>pdb|2D8M|A Chain A, Solution Structure Of The First Brct Domain Of Dna-Repair
Protein Xrcc1
Length = 129
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 124 IKVTLSGNQQPVRTEITEAAMELGAE 149
+ V LSG Q P R+E+ + A+ELGA+
Sbjct: 26 VVVVLSGFQNPFRSELRDKALELGAK 51
>pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3PDE|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
Length = 309
Score = 30.8 bits (68), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 65 KKDNNEKGDDAPSKAGILGNMQNLYETVKKAQMVVQVEAVRVQKELAAAEFDGYCEGELI 124
+KD +E + P K G++G Q L +T+ Q +Q Q++ AA F Y + E +
Sbjct: 242 QKDADEAKNTYPGKLGLIGANQALIDTIHSGQAALQGLPTSTQRDDLAAFF-SYFDTERV 300
Query: 125 K 125
Sbjct: 301 N 301
>pdb|1JPA|A Chain A, Crystal Structure Of Unphosphorylated Ephb2 Receptor
Tyrosine Kinase And Juxtamembrane Region
pdb|1JPA|B Chain B, Crystal Structure Of Unphosphorylated Ephb2 Receptor
Tyrosine Kinase And Juxtamembrane Region
Length = 312
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/129 (20%), Positives = 50/129 (38%), Gaps = 26/129 (20%)
Query: 90 ETVKKAQMVVQVEAVRVQKELAAAEFDGYCEGEL-----------IKVTLSGNQQPVRTE 138
E V++ + + V++++ + A EF C G L IK SG + R +
Sbjct: 21 EAVREFAKEIDISCVKIEQVIGAGEFGEVCSGHLKLPGKREIFVAIKTLKSGYTEKQRRD 80
Query: 139 ITEAAMELG---------------AEKLSLLVTEAYKDAHQKSVLAMKERMSDLAQSLGM 183
A +G +++TE ++ S L + + Q +GM
Sbjct: 81 FLSEASIMGQFDHPNVIHLEGVVTKSTPVMIITEFMENGSLDSFLRQNDGQFTVIQLVGM 140
Query: 184 PQGLSEGLK 192
+G++ G+K
Sbjct: 141 LRGIAAGMK 149
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
0.311 0.126 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,519,698
Number of Sequences: 62578
Number of extensions: 151163
Number of successful extensions: 370
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 47
Number of HSP's that attempted gapping in prelim test: 345
Number of HSP's gapped (non-prelim): 52
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)