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= 019734
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XM6|A Chain A, Crystal Structure Of The Protein Corresponding To Locus
C5321 From Cft073 E.Coli Strain
Length = 490
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 59/215 (27%), Positives = 103/215 (47%), Gaps = 18/215 (8%)
Query: 108 GKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYWE-----MDKKEAAISLYRQ 162
G R+ +G GV ++ +A+ + K A +G A + G+MY E +DK E+ + +R
Sbjct: 82 GLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAES-VKWFRL 140
Query: 163 AAVLGDPAGQFNLGISYLQEEAVKLLY--------QASIAGHVRAQYQLALCLHRGRGVD 214
AA G +GQ ++G +Y + + V Y +A+ G+V + QL RG GV+
Sbjct: 141 AAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVE 200
Query: 215 FNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQARKWMKRAADCGHGKAQLE 274
N +A+WY ++A G + + Y FG G+ + Q+R ++A+ G+ AQ
Sbjct: 201 RNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFR 260
Query: 275 HGL----GLFTEGEMMKAVVYLELATRAGETAADH 305
G GL E +KA+ + + G + +
Sbjct: 261 LGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQY 295
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 50/174 (28%), Positives = 73/174 (41%), Gaps = 34/174 (19%)
Query: 100 EAMVLLRWGKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYWE-----MDKKE 154
EA L G R+ G K+L +A+D F + A +G T A GL Y D +
Sbjct: 38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQ 97
Query: 155 AAISLYRQAAVLGDPAGQFNLGISYLQEEAVKLLYQASIAGHVRAQYQLALCLHRGRGVD 214
A I Y++AA+ G P Q NLG+ Y H G GV
Sbjct: 98 AVI-WYKKAALKGLPQAQQNLGVMY----------------------------HEGNGVK 128
Query: 215 FNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQARKWMKRAADCGH 268
+ E+ +W+ AAE G + Y G+G+ + AR+W +AA+ G+
Sbjct: 129 VDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGN 182
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 65/141 (46%), Gaps = 6/141 (4%)
Query: 188 LYQASIAGHVRAQYQLALCLHRGRGVDFNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGE 247
L Q + +G +AQ +L +G +L +A W+ RAAE GY A Y L Y GE
Sbjct: 30 LKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGE 89
Query: 248 GLPLSHRQARKWMKRAADCGHGKAQLEHGLGLFTEGEMMK-----AVVYLELATRAGETA 302
G+P + QA W K+AA G +AQ G+ ++ EG +K +V + LA G +
Sbjct: 90 GVPQDYAQAVIWYKKAALKGLPQAQQNLGV-MYHEGNGVKVDKAESVKWFRLAAEQGRDS 148
Query: 303 ADHVKNVILQQLSATSRDRAM 323
+ +RD M
Sbjct: 149 GQQSMGDAYFEGDGVTRDYVM 169
Score = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 54/201 (26%), Positives = 91/201 (45%), Gaps = 16/201 (7%)
Query: 108 GKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYWE---MDKKEA-AISLYRQA 163
G + G GV ++ A + + K A +G+ + G MY +++ +A + YR++
Sbjct: 154 GDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKS 213
Query: 164 AVLGDPAGQ--------FNLGISYLQEEAVKLLYQASIAGHVRAQYQLALCLHRGRGVDF 215
A GD GQ F +G++ ++ L Q++ G+ AQ++L L +G
Sbjct: 214 ATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAK 273
Query: 216 NLQEAARWYLRAAEGGYVRAMYNTSLCYSFG-EGLPLSHRQARKWMKRAADCGHGKAQLE 274
+A WY ++AE G Y + Y G EG+ + QA W ++A+ G AQ
Sbjct: 274 EPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQGDATAQAN 333
Query: 275 HGLGLF---TEGEMMKAVVYL 292
G F +E E KAV +
Sbjct: 334 LGAIYFRLGSEEEHKKAVEWF 354
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 81/179 (45%), Gaps = 18/179 (10%)
Query: 101 AMVLLRWGKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYWEMDK-------- 152
++ R G + G K KAL+ + K A +G++ +Y DK
Sbjct: 255 SIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLY---DKGAEGVAKN 311
Query: 153 KEAAISLYRQAAVLGDPAGQFNLGISYL----QEE---AVKLLYQASIAGHVRAQYQLAL 205
+E AIS Y ++A GD Q NLG Y +EE AV+ +A+ G AQ+ L
Sbjct: 312 REQAISWYTKSAEQGDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGN 371
Query: 206 CLHRGRGVDFNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQARKWMKRAA 264
L +G+GV + Q+AA W +AAE G A Y +G G+ + QA W A+
Sbjct: 372 ALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTAS 430
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 65/274 (23%), Positives = 110/274 (40%), Gaps = 59/274 (21%)
Query: 108 GKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYW-----EMDKKEAAISLYRQ 162
G + G GV +N + + K A G L + MY+ D ++ + L+ Q
Sbjct: 190 GYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRV-LFSQ 248
Query: 163 AAVLGDPAGQFNLGISYLQEE----------AVKLLYQASIAGHVRAQYQLALCLHRG-R 211
+A G+ QF LG Y+ E+ A++ +++ G+ QY LA +G
Sbjct: 249 SAEQGNSIAQFRLG--YILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAE 306
Query: 212 GVDFNLQEAARWYLRAAEGGYVRAMYNTSLCY---------------------------S 244
GV N ++A WY ++AE G A N Y
Sbjct: 307 GVAKNREQAISWYTKSAEQGDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQ 366
Query: 245 F--------GEGLPLSHRQARKWMKRAADCGHGKAQLEHG----LGLFTEGEMMKAVVYL 292
F G+G+ +QA WM++AA+ G AQ++ G GL E + ++A +
Sbjct: 367 FNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWF 426
Query: 293 ELA-TRAGETAADHVKNVILQQLSATSRDRAMLV 325
+ A T +N+ ++L+A +A L+
Sbjct: 427 DTASTNDMNLFGTENRNITEKKLTAKQLQQAELL 460
>pdb|1OUV|A Chain A, Helicobacter Cysteine Rich Protein C (Hcpc)
Length = 273
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 35/155 (22%)
Query: 147 YWEMDKKEAAISLYRQAAVLGDPAGQFNLGISYLQEEAVKLLYQASIAGHVRAQYQLALC 206
Y E D +A + +A L + +G FNLG+ Y Q
Sbjct: 17 YKEKDFTQAK-KYFEKACDLKENSGCFNLGVLYYQ------------------------- 50
Query: 207 LHRGRGVDFNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQARKWMKRAADC 266
G+GV+ NL++AA +Y +A + Y + Y G+G+ + +A ++ +A D
Sbjct: 51 ---GQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDL 107
Query: 267 GHGKAQLEHGLGLFTEGEMM-----KAVVYLELAT 296
+ + G G++ +G+++ KAV Y A
Sbjct: 108 KYAEGCASLG-GIYHDGKVVTRDFKKAVEYFTKAC 141
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 47/200 (23%), Positives = 73/200 (36%), Gaps = 19/200 (9%)
Query: 98 LREAMVLLRWGKRFKHGRGVRKNLDKALDSFLKGAARGSTLAMVDAGLMYWE----MDKK 153
L+E G + G+GV KNL KA + K + G +Y+
Sbjct: 35 LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNT 94
Query: 154 EAAISLYRQAAVLGDPAGQFNLGISYLQ--------EEAVKLLYQASIAGHVRAQYQLAL 205
A+ Y +A L G +LG Y ++AV+ +A L
Sbjct: 95 NKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGS 154
Query: 206 CLHRGRGVDFNLQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQARKWMKRAAD 265
GRG +L++A Y +A + +N Y GEG + ++A +A
Sbjct: 155 LYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKA-- 212
Query: 266 CGHGKAQLEHGLGLFTEGEM 285
+LE+G G F G M
Sbjct: 213 -----CELENGGGCFNLGAM 227
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 67/179 (37%), Gaps = 48/179 (26%)
Query: 98 LREAMVLLRWGKRFKHGRGVRKNLDKALDSFLKGA----ARGSTL--AMVDAGLMYWEMD 151
L+ A G + G+ V ++ KA++ F K G T+ ++ DAG +
Sbjct: 107 LKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPKDL 166
Query: 152 KKEAAISLYRQAAVLGDPAGQFNLGISYLQEEAVKLLYQASIAGHVRAQYQLALCLHRGR 211
KK A++ Y +A L D G FN G Y H G
Sbjct: 167 KK--ALASYDKACDLKDSPGCFNAGNMY----------------------------HHGE 196
Query: 212 GVDFNLQEAARWYLRAAEGGYVRAMYNTSLCYSFG------EGLPLSHRQARKWMKRAA 264
G N +EA Y +A E + N C++ G EG+ + +QA + K+
Sbjct: 197 GATKNFKEALARYSKACE------LENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGC 249
>pdb|2YXG|A Chain A, Crystal Structure Of Dihyrodipicolinate Synthase (Dapa)
pdb|2YXG|B Chain B, Crystal Structure Of Dihyrodipicolinate Synthase (Dapa)
pdb|2YXG|C Chain C, Crystal Structure Of Dihyrodipicolinate Synthase (Dapa)
pdb|2YXG|D Chain D, Crystal Structure Of Dihyrodipicolinate Synthase (Dapa)
Length = 289
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 46/110 (41%), Gaps = 14/110 (12%)
Query: 198 RAQYQLALCLHRGRGVDFN-LQEAARWYLRAAEGGYVRAMYNTSLCYSFGEGLPLSHRQA 256
+ Y + + + VDF+ L+E + + G V + GE LSH +
Sbjct: 3 KGVYPAIITPFKNKEVDFDGLEENINFLIENGVSGIVA-------VGTTGESPTLSHEEH 55
Query: 257 RKWMKRAADCGHGKAQLEHGLGLFTEGEMMKAVVYLELATRAGETAADHV 306
+K +++ D +G+ Q+ G G E +EL+ A + AD V
Sbjct: 56 KKVIEKVVDVVNGRVQVIAGAGSNCTEEA------IELSVFAEDVGADAV 99
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
0.322 0.133 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,083,244
Number of Sequences: 62578
Number of extensions: 339323
Number of successful extensions: 658
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 632
Number of HSP's gapped (non-prelim): 16
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
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: 52 (24.6 bits)