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= 006475
(643 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A9Q|A Chain A, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|B Chain B, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|C Chain C, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|D Chain D, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|E Chain E, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|F Chain F, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|G Chain G, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|H Chain H, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|I Chain I, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|J Chain J, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|K Chain K, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|L Chain L, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|M Chain M, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|N Chain N, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|O Chain O, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|P Chain P, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|Q Chain Q, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|R Chain R, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|S Chain S, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|T Chain T, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|U Chain U, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|V Chain V, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|W Chain W, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
pdb|3A9Q|X Chain X, Crystal Structure Analysis Of E173a Variant Of The Soybean
Ferritin Sfer4
Length = 212
Score = 33.9 bits (76), Expect = 0.31, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 346 SFSTGDEDHSVVDLTSNKYAAWAVEVAERTASLVAQWQGVGFTHGVLNTDNM 397
S +T + D + D +Y VE +R + VAQ + VG HGV + D M
Sbjct: 152 SVATKNGDVQLADFVETEYLGAQVEAIKRISEYVAQLRRVGKGHGVWHFDQM 203
>pdb|3A68|A Chain A, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|B Chain B, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|C Chain C, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|D Chain D, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|E Chain E, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|F Chain F, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|G Chain G, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|H Chain H, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|I Chain I, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|J Chain J, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|K Chain K, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|L Chain L, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|M Chain M, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|N Chain N, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|O Chain O, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|P Chain P, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|Q Chain Q, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|R Chain R, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|S Chain S, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|T Chain T, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|U Chain U, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|V Chain V, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|W Chain W, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
pdb|3A68|X Chain X, Crystal Structure Of Plant Ferritin Reveals A Novel Metal
Binding Site That Functions As A Transit Site For Metal
Transfer In Ferritin
Length = 212
Score = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 346 SFSTGDEDHSVVDLTSNKYAAWAVEVAERTASLVAQWQGVGFTHGVLNTDNM 397
S +T + D + D +Y VE +R + VAQ + VG HGV + D M
Sbjct: 152 SVATKNGDVQLADFVETEYLGEQVEAIKRISEYVAQLRRVGKGHGVWHFDQM 203
>pdb|1K1D|A Chain A, Crystal Structure Of D-Hydantoinase
pdb|1K1D|B Chain B, Crystal Structure Of D-Hydantoinase
pdb|1K1D|C Chain C, Crystal Structure Of D-Hydantoinase
pdb|1K1D|D Chain D, Crystal Structure Of D-Hydantoinase
pdb|1K1D|E Chain E, Crystal Structure Of D-Hydantoinase
pdb|1K1D|F Chain F, Crystal Structure Of D-Hydantoinase
pdb|1K1D|G Chain G, Crystal Structure Of D-Hydantoinase
pdb|1K1D|H Chain H, Crystal Structure Of D-Hydantoinase
Length = 460
Score = 33.1 bits (74), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 46/191 (24%), Positives = 73/191 (38%), Gaps = 40/191 (20%)
Query: 100 KALEDLNWD---HSFVR--ELPGDPRTDSIPRE--------VLHA-CYTKVSPSAEVENP 145
KAL D N D H+ R EL G+ + V+H C V AE N
Sbjct: 196 KALADGNTDPIYHALTRPPELEGEATGRACQLTELAGSQLYVVHVTCAQAVEKIAEARNK 255
Query: 146 QLVAWSESVADSLELDPKEFERPDFPLFFSGATPLAGAVPYAQCYGGHQFGMWAGQLGDG 205
L W E+ L LD E+P+F + P + + HQ +W
Sbjct: 256 GLDVWGETCPQYLVLDQSYLEKPNFE-----GAKYVWSPPLREKW--HQEVLW------- 301
Query: 206 RAITLGEILNLKSERWELQLKGA---GKTPYSRFADGLAVLRSSIREFLCSEAM------ 256
A+ G++ L S++ KG G+ +++ +G ++ + L SE +
Sbjct: 302 NALKNGQLQTLGSDQCSFDFKGQKELGRGDFTKIPNGGPIIEDRV-SILFSEGVKKGRIT 360
Query: 257 --HFLGIPTTR 265
F+ I +TR
Sbjct: 361 LNQFVDIVSTR 371
>pdb|1H6F|A Chain A, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
pdb|1H6F|B Chain B, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
Length = 193
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 54/106 (50%), Gaps = 11/106 (10%)
Query: 486 GLPKYNKQIISKLLNNMAVDKVDYT-NFFRALSNVKADPSIPEDELLVPLKAVLLDIGKE 544
GL K K I+ L++ +A D Y + R + KADP +P+ + P
Sbjct: 44 GLDKKAKYIL--LMDIIAADDCRYKFHNSRWMVAGKADPEMPKRMYIHPDSPAT------ 95
Query: 545 RKEAWISWVLSYIQELLSSGISDEERKALMNSVNPKYVLRNYLCQS 590
E W+S V+++ + L++ ISD+ ++NS++ KY R ++ ++
Sbjct: 96 -GEQWMSKVVTFHKLKLTNNISDKHGFTILNSMH-KYQPRFHIVRA 139
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 218 SERWELQLKGAGKTPYSRFADGLAVL---RSSIREFLCSEAMHFLGIPTTRALCL 269
S+ WEL L +TP DGL ++ RS E +C + L T CL
Sbjct: 20 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECL 74
>pdb|4H1X|A Chain A, Crystal Structure Of A Phosphate Abc Transporter,
Phosphate-Binding Protein (Sp_2084) From Streptococcus
Pneumoniae Tigr4 At 1.77 A Resolution
Length = 265
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 39/167 (23%), Positives = 69/167 (41%), Gaps = 29/167 (17%)
Query: 259 LGIPTTRALCLVTTGKFVTRDMFYDGN-PKEEPGAIV-----CRVAQSFLRFGSYQIHAS 312
LG T L G +RD DG P + P IV ++ Q F+ F IH+
Sbjct: 73 LGSLTKSVKALEIDGVKASRDTVLDGEYPLQRPFNIVWSSNLSKLGQDFISF----IHSK 128
Query: 313 RGQED------LDIVRTLADYAIRHHFRHIENMNKS------ESLSFSTGDEDHSV-VDL 359
+GQ+ ++ +Y +H + + + E L+ + E+ V +D+
Sbjct: 129 QGQQVVTDNKFIEAKTETTEYTSQHLSGKLSVVGSTSVSSLXEKLAEAYKKENPEVTIDI 188
Query: 360 TSNKYAAWAVEVAERTASL------VAQWQGVGFTHGVLNTDNMSIL 400
TSN +A V E+TA + + +G TH + D ++++
Sbjct: 189 TSNGSSAGITAVKEKTADIGXVSRELTPEEGKSLTHDAIALDGIAVV 235
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 3/55 (5%)
Query: 218 SERWELQLKGAGKTPYSRFADGLAVL---RSSIREFLCSEAMHFLGIPTTRALCL 269
S+ WEL L +TP DGL ++ RS E +C + L T CL
Sbjct: 19 SKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECL 73
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
0.318 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,072,787
Number of Sequences: 62578
Number of extensions: 860308
Number of successful extensions: 1966
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: 1964
Number of HSP's gapped (non-prelim): 9
length of query: 643
length of database: 14,973,337
effective HSP length: 105
effective length of query: 538
effective length of database: 8,402,647
effective search space: 4520624086
effective search space used: 4520624086
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)