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= 044630
(343 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HKM|A Chain A, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|B Chain B, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|C Chain C, Crystal Structure Of Rice(Oryza Sativa) Rrp46
Length = 246
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 65/175 (37%), Gaps = 8/175 (4%)
Query: 82 QLRPPHCTNE--ERIHGQCIGPNRNQLAFLHVAMFWLAVGGAGGIRP--CSIPFAVDQFD 137
QLRP CT +R HG + + A++ G G P SI
Sbjct: 13 QLRPFSCTRNPLDRAHGSARWAQGDTIVL--AAVYGPKPGTRKGENPEKASIEVVWKPMT 70
Query: 138 SRTDKGRKEINSFFNWYYTTFTLVLLITSTIVAYVQTVSWAWGFTIPTVCLFCGLVLLFA 197
+ K KE + L+ + +T + + V G +P C L+FA
Sbjct: 71 GQIGKQEKEYEMTLKRTLQSICLLTVHPNTTTSVILQVVGNDGSLLPCAINACCAALVFA 130
Query: 198 GMRIYVLVIAEGSLFSSIVQVFVVAYKKRRHQLQSVGDGIFYVPPLKKTLGSKLP 252
G+ + L +A G +V + K QL+S +F P +K+ SK P
Sbjct: 131 GIPLKHLAVAIGCGVLEDGEVILDTNKAEEQQLKSFAHLVF--PNSRKSASSKEP 183
>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter.
pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
Family Transporter
Length = 524
Score = 35.0 bits (79), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 86/215 (40%), Gaps = 43/215 (20%)
Query: 1 NETFERLGSFGIMAIFTVYLLNEYNVS------QAYVAAKFGAWNGVADFLTVIFAFLAD 54
+E ER +G+ I T +L+ +S A F ++ F ++ ++AD
Sbjct: 20 SEACERFSFYGMRNILTPFLMTALLLSIPEELRGAVAKDVFHSFVIGVYFFPLLGGWIAD 79
Query: 55 AYIGKFVTIVLGFLLGMLMVTLTAIVPQLRPPHCTNEERIHGQCIGPNRNQLAFLHVAMF 114
+ GK+ TI+ L+ + AI E + G + +F
Sbjct: 80 RFFGKYNTILWLSLIYCVGHAFLAIF----------EHSVQG------------FYTGLF 117
Query: 115 WLAVGGAGGIRPCSIPFAVDQFD-SRTDKGRKEINSF-----FNWYYTTFTLVLLITSTI 168
+A+G +GGI+P F DQFD S +K + F F ++ + ++ LL+
Sbjct: 118 LIALG-SGGIKPLVSSFMGDQFDQSNKSLAQKAFDMFYFTINFGSFFASLSMPLLL---- 172
Query: 169 VAYVQTVSWAWGFTIPTVCLFCGLVLLFAGMRIYV 203
+ A F IP V +F V + G + Y+
Sbjct: 173 ----KNFGAAVAFGIPGVLMFVATVFFWLGRKRYI 203
>pdb|3R4V|A Chain A, Structure Of The Phage Tubulin Phuz-gdp
Length = 315
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 229 QLQSVGDGIFYVPPLKKTLGSKLPLTSSQFRFLNKAAIIDNNDEIKQDGI 278
Q+ V + + V +K SKL +T Q +F + IID +D + +DG+
Sbjct: 264 QIHFVINSVGVVEIMKTITDSKLEMTRQQSKFTQRNPIIDADDNVDEDGM 313
>pdb|3K2W|A Chain A, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|B Chain B, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|C Chain C, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|D Chain D, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|E Chain E, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|F Chain F, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|G Chain G, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
pdb|3K2W|H Chain H, Crystal Structure Of Betaine-Aldehyde Dehydrogenase From
Pseudoalteromonas Atlantica T6c
Length = 497
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 41/99 (41%), Gaps = 18/99 (18%)
Query: 239 YVPPLKKTLGSKLPLTSSQFRFLNKAAIIDNNDEIKQD---GICMNPRRLCSIQQVEEVN 295
Y+ P+ LG K P+ L+KAA +D G N ++C+ V
Sbjct: 250 YMTPVMLELGGKAPMVVMDDADLDKAA---------EDALWGRFANCGQVCTC-----VE 295
Query: 296 WLMIIVPIWASAIISFLPMQIGTFVVGQAMRMDRHLGPK 334
L + ++ + FLP+ G VG M D +GPK
Sbjct: 296 RLYVHASVYDEFMAKFLPLVKG-LKVGDPMDADSQMGPK 333
>pdb|3RB8|A Chain A, Structure Of The Phage Tubulin Phuz(semet)-gdp
Length = 315
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%)
Query: 229 QLQSVGDGIFYVPPLKKTLGSKLPLTSSQFRFLNKAAIIDNNDEIKQDG 277
Q+ V + + V K SKL T Q +F + IID +D + +DG
Sbjct: 264 QIHFVINSVGVVEIXKTITDSKLEXTRQQSKFTQRNPIIDADDNVDEDG 312
>pdb|4AU0|A Chain A, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
6-chloro-4- Methylumbelliferyl-beta-cellobioside
pdb|4AU0|B Chain B, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
6-chloro-4- Methylumbelliferyl-beta-cellobioside
pdb|4AX6|A Chain A, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
6-chloro-4-phenylumbelliferyl-beta-cellobioside
pdb|4AX6|B Chain B, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
6-chloro-4-phenylumbelliferyl-beta-cellobioside
pdb|4AX7|A Chain A, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
4-methylumbelliferyl-beta-d-cellobioside
pdb|4AX7|B Chain B, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
4-methylumbelliferyl-beta-d-cellobioside
pdb|4AX7|C Chain C, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
4-methylumbelliferyl-beta-d-cellobioside
pdb|4AX7|D Chain D, Hypocrea Jecorina Cel6a D221a Mutant Soaked With
4-methylumbelliferyl-beta-d-cellobioside
Length = 363
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 56 YIGKFVTIVLGF-----LLGMLMVTLTAIVPQLRPPHCTNEERIHGQCIGPNRNQLAFLH 110
YI IV+ + LL + +L +V L P C N + + +CI QL +
Sbjct: 114 YIDTIRQIVVEYSDIRTLLVIEPASLANLVTNLGTPKCANAQSAYLECINYAVTQLNLPN 173
Query: 111 VAMFWLAVGGAG 122
VAM+ L G AG
Sbjct: 174 VAMY-LDAGHAG 184
>pdb|1HGY|A Chain A, Cel6a D221a Mutant
pdb|1HGY|B Chain B, Cel6a D221a Mutant
Length = 365
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 6/72 (8%)
Query: 56 YIGKFVTIVLGF-----LLGMLMVTLTAIVPQLRPPHCTNEERIHGQCIGPNRNQLAFLH 110
YI IV+ + LL + +L +V L P C N + + +CI QL +
Sbjct: 116 YIDTIRQIVVEYSDIRTLLVIEPASLANLVTNLGTPKCANAQSAYLECINYAVTQLNLPN 175
Query: 111 VAMFWLAVGGAG 122
VAM+ L G AG
Sbjct: 176 VAMY-LDAGHAG 186
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
0.329 0.143 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,504,683
Number of Sequences: 62578
Number of extensions: 366396
Number of successful extensions: 751
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 748
Number of HSP's gapped (non-prelim): 9
length of query: 343
length of database: 14,973,337
effective HSP length: 100
effective length of query: 243
effective length of database: 8,715,537
effective search space: 2117875491
effective search space used: 2117875491
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (24.6 bits)