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= 005709
(681 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RHI|2 Chain 2, Human Rhinovirus 3 Coat Protein
Length = 262
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/172 (23%), Positives = 67/172 (38%), Gaps = 22/172 (12%)
Query: 149 KVLKISYDGLNWEEKEIFLDVACFFKG------EDVDFVTRVQDDPTSMHNGLNTLVEMS 202
K K + G W+ + D+ F + + VQ + T H+G +
Sbjct: 69 KTWKATSKGWCWKLPDALKDMGVFGQNMFYHSLGRTGYTIHVQCNATKFHSGC-----LL 123
Query: 203 LITISANRLQMHDILQELGKTIILQESFKEPGKRSKLWDHKDVYQVLKKNKGTDAIEGIF 262
++ I ++L H+ G T+ ++ + PG R D +V +DAI +
Sbjct: 124 VVVIPEHQLASHE-----GGTVSVKYKYTHPGDRGIDLDTVEV----AGGPTSDAIYNM- 173
Query: 263 FDLSKINYLHLSPQAFANMSSLTLLKFYMPECNGVPIMSSKLHLNQDLEYLP 314
D + + L + P F NM + +P N VPI S H N L +P
Sbjct: 174 -DGTLLGNLLIFPHQFINMRTNNTATIVVPYINSVPIDSMTRHNNVSLMVVP 224
>pdb|1K5M|B Chain B, Crystal Structure Of A Human Rhinovirus Type 14:human
Immunodeficiency Virus Type 1 V3 Loop Chimeric Virus Mn-
Iii-2
Length = 277
Score = 36.2 bits (82), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 37/183 (20%), Positives = 72/183 (39%), Gaps = 29/183 (15%)
Query: 149 KVLKISYDGLNWEEKEIFLDVACFFKGEDV--------DFVTRVQDDPTSMHNGLNTLVE 200
K G W+ + D+ F G+++ + VQ + T H+G
Sbjct: 69 KTWTTGSKGWCWKLPDALKDMGVF--GQNMFFHSLGRSGYTVHVQCNATKFHSGC----- 121
Query: 201 MSLITISANRLQMHDILQELGKTIILQESFKEPGKRS-KLWDHKDV------YQVLKKNK 253
+ ++ I ++L H+ G + ++ +F PG+R L D + K N+
Sbjct: 122 LLVVVIPEHQLASHE-----GGNVSVKYTFTHPGERGIDLSSAADTIGPGRAFYTTKNNE 176
Query: 254 GTDAIEGIFFDLSK--INYLHLSPQAFANMSSLTLLKFYMPECNGVPIMSSKLHLNQDLE 311
++ + ++++ + L + P F N+ + +P N VPI S H N L
Sbjct: 177 VGGPVKDVIYNMNGTLLGNLLIFPHQFINLRTNNTATIVIPYINSVPIDSMTRHNNVSLM 236
Query: 312 YLP 314
+P
Sbjct: 237 VIP 239
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 35.8 bits (81), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 3/105 (2%)
Query: 316 KLRYLHWHEYPLKTLPFSFEPNYLIELNLPYSKVEQIWIGEKKAF-KLKFINL-YNSRYL 373
KL YL E L +P P L EL+L ++K++ I + + + KL + L +N +
Sbjct: 173 KLNYLRISEAKLTGIPKDL-PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRM 231
Query: 374 TRLPEFSEIPNLERINLSGSELERLPATIKQFSQLRYLYLRNCNM 418
S +P L ++L ++L R+PA + L+ +YL N+
Sbjct: 232 IENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNI 276
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 52/106 (49%), Gaps = 3/106 (2%)
Query: 315 KKLRYLHWHEYPLKTLPFSFEPNYLIELNLPYSKVEQIWIGEKKAFK-LKFINL-YNSRY 372
KKL Y+ + + T+P P+ L EL+L +K+ ++ K L + L +NS
Sbjct: 171 KKLSYIRIADTNITTIPQGLPPS-LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 229
Query: 373 LTRLPEFSEIPNLERINLSGSELERLPATIKQFSQLRYLYLRNCNM 418
+ P+L ++L+ ++L ++P + ++ +YL N N+
Sbjct: 230 AVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNI 275
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 52/106 (49%), Gaps = 3/106 (2%)
Query: 315 KKLRYLHWHEYPLKTLPFSFEPNYLIELNLPYSKVEQIWIGEKKAFK-LKFINL-YNSRY 372
KKL Y+ + + T+P P+ L EL+L +K+ ++ K L + L +NS
Sbjct: 171 KKLSYIRIADTNITTIPQGLPPS-LTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 229
Query: 373 LTRLPEFSEIPNLERINLSGSELERLPATIKQFSQLRYLYLRNCNM 418
+ P+L ++L+ ++L ++P + ++ +YL N N+
Sbjct: 230 AVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNI 275
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 61/245 (24%), Positives = 107/245 (43%), Gaps = 46/245 (18%)
Query: 24 KVLIVLDDVDDNSKNFAGGLELFSPGSRIIITTRDKRLLDK-RRVENVYEVK-GLKHNSA 81
+ L++LDDV D + L+ F +I++TTRDK + D + V V+ L
Sbjct: 237 RSLLILDDVWD-----SWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 291
Query: 82 LELFCRKAFRQNNRSPDLLELSEEVAHYANGNPLALQVLGSSLYQKSKEQWKDKLRKL-- 139
LE+ + N + DL E + + G+PL + ++G +L + +W+ L++L
Sbjct: 292 LEIL---SLFVNMKKADLPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQN 347
Query: 140 ---KLITDPNIY------KVLKISYDGLNWEEKEIFLDVACFFKGEDVDFVTRV-----Q 185
K I + Y + + IS + L + K+ + D++ K DV T+V
Sbjct: 348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQK--DVKVPTKVLCILWD 405
Query: 186 DDPTSMHNGLNTLVEMSLITISAN----RLQMHDI------------LQELGKTIILQ-E 228
+ + + L V SL+ N R +HD+ LQ+L K II Q +
Sbjct: 406 METEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQ 465
Query: 229 SFKEP 233
+ +P
Sbjct: 466 RYHQP 470
>pdb|1R08|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|1R09|2 Chain 2, Human Rhinovirus 14 Complexed With Antiviral Compound R
61837
pdb|1RMU|2 Chain 2, Three-Dimensional Structures Of Drug-Resistant Mutants Of
Human Rhinovirus 14
pdb|2R04|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2R06|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2R07|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RM2|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RMU|2 Chain 2, Three-Dimensional Structures Of Drug-Resistant Mutants Of
Human Rhinovirus 14
pdb|2RR1|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS1|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS3|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS5|2 Chain 2, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|4RHV|2 Chain 2, The Use Of Molecular-Replacement Phases For The Refinement
Of The Human Rhinovirus 14 Structure
pdb|1HRI|2 Chain 2, Structure Determination Of Antiviral Compound Sch 38057
Complexed With Human Rhinovirus 14
pdb|1HRV|2 Chain 2, Hrv14SDZ 35-682 Complex
pdb|1RUJ|2 Chain 2, Rhinovirus 14 Mutant With Ser 1 223 Replaced By Gly
(S1223g)
pdb|1RUI|2 Chain 2, Rhinovirus 14 Mutant S1223g Complexed With Antiviral
Compound Win 52084
pdb|1RUH|2 Chain 2, Rhinovirus 14 Mutant N1219s Complexed With Antiviral
Compound Win 52084
pdb|1RUG|2 Chain 2, Rhinovirus 14 Mutant N1219s Complexed With Antiviral
Compound Win 52035
pdb|1RUF|2 Chain 2, Rhinovirus 14 (Hrv14) (Mutant With Asn 1 219 Replaced By
Ala (N219a In Chain 1)
pdb|1RUE|2 Chain 2, Rhinovirus 14 Site Directed Mutant N1219a Complexed With
Antiviral Compound Win 52035
pdb|1RUD|2 Chain 2, Rhinovirus 14 Mutant N1105s Complexed With Antiviral
Compound Win 52084
pdb|1RUC|2 Chain 2, Rhinovirus 14 Mutant N1105s Complexed With Antiviral
Compound Win 52035
pdb|1VRH|2 Chain 2, Hrv14/sdz 880-061 Complex
pdb|1RVF|2 Chain 2, Fab Complexed With Intact Human Rhinovirus
pdb|1D3I|2 Chain 2, Cryo-Em Structure Of Human Rhinovirus 14 (Hrv14) Complexed
With A Two-Domain Fragment Of Its Cellular Receptor,
Intercellular Adhesion Molecule-1 (D1d2-Icam-1).
Implications For Virus-Receptor Interactions. Alpha
Carbons Only
pdb|1NA1|B Chain B, The Structure Of Hrv14 When Complexed With Pleconaril
pdb|1NCQ|B Chain B, The Structure Of Hrv14 When Complexed With Pleconaril, An
Antiviral Compound
Length = 262
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 34/176 (19%), Positives = 69/176 (39%), Gaps = 30/176 (17%)
Query: 149 KVLKISYDGLNWEEKEIFLDVACFFKGEDV--------DFVTRVQDDPTSMHNGLNTLVE 200
K G W+ + D+ F G+++ + VQ + T H+G
Sbjct: 69 KTWTTGSKGWCWKLPDALKDMGVF--GQNMFFHSLGRSGYTVHVQCNATKFHSGC----- 121
Query: 201 MSLITISANRLQMHDILQELGKTIILQESFKEPGKRSKLWDHKDVYQVLKKNKGTDAIEG 260
+ ++ I ++L H+ G + ++ +F PG+R + N+ ++
Sbjct: 122 LLVVVIPEHQLASHE-----GGNVSVKYTFTHPGERG--------IDLSSANEVGGPVKD 168
Query: 261 IFFDLSK--INYLHLSPQAFANMSSLTLLKFYMPECNGVPIMSSKLHLNQDLEYLP 314
+ ++++ + L + P F N+ + +P N VPI S H N L +P
Sbjct: 169 VLYNMNGTLLGNLLIFPHQFINLRTNNTATIVIPYINSVPIDSMTRHNNVSLMVIP 224
>pdb|2HWB|2 Chain 2, A Comparison Of The Anti-Rhinoviral Drug Binding Pocket In
Hrv14 And Hrv1a
pdb|2HWC|2 Chain 2, A Comparison Of The Anti-Rhinoviral Drug Binding Pocket In
Hrv14 And Hrv1a
Length = 262
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 34/176 (19%), Positives = 69/176 (39%), Gaps = 30/176 (17%)
Query: 149 KVLKISYDGLNWEEKEIFLDVACFFKGEDV--------DFVTRVQDDPTSMHNGLNTLVE 200
K G W+ + D+ F G+++ + VQ + T H+G
Sbjct: 69 KTWTTGSKGWCWKLPDALKDMGVF--GQNMFFHSLGRSGYTVHVQCNATKFHSGC----- 121
Query: 201 MSLITISANRLQMHDILQELGKTIILQESFKEPGKRSKLWDHKDVYQVLKKNKGTDAIEG 260
+ ++ I ++L H+ G + ++ +F PG+R + N+ ++
Sbjct: 122 LLVVVIPEHQLASHE-----GGNVSVKYTFTHPGERG--------IDLSSANEVGGPVKD 168
Query: 261 IFFDLSK--INYLHLSPQAFANMSSLTLLKFYMPECNGVPIMSSKLHLNQDLEYLP 314
+ ++++ + L + P F N+ + +P N VPI S H N L +P
Sbjct: 169 VVYNMNGTLLGNLLIFPHQFINLRTNNTATIVIPYINSVPIDSMTRHNNVSLMVIP 224
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 64/138 (46%), Gaps = 11/138 (7%)
Query: 24 KVLIVLDDVDDNSKNFAGGLELFSPGSRIIITTRDKRLLDK-RRVENVYEVK-GLKHNSA 81
+ L++LDDV D L+ F +I++TTRDK + D ++V V+ GL
Sbjct: 237 RSLLILDDVWD-----PWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291
Query: 82 LELFCRKAFRQNNRSPDLLELSEEVAHYANGNPLALQVLGSSLYQKSKEQWKDKLRKLKL 141
LE+ + N + DL + + G+PL + ++G +L + +W LR+L+
Sbjct: 292 LEIL---SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIG-ALLRDFPNRWAYYLRQLQN 347
Query: 142 ITDPNIYKVLKISYDGLN 159
I K Y+ L+
Sbjct: 348 KQFKRIRKSSSYDYEALD 365
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 61/245 (24%), Positives = 107/245 (43%), Gaps = 46/245 (18%)
Query: 24 KVLIVLDDVDDNSKNFAGGLELFSPGSRIIITTRDKRLLDK-RRVENVYEVK-GLKHNSA 81
+ L++LDDV D + L+ F +I++TTRDK + D + V V+ L
Sbjct: 243 RSLLILDDVWD-----SWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 297
Query: 82 LELFCRKAFRQNNRSPDLLELSEEVAHYANGNPLALQVLGSSLYQKSKEQWKDKLRKL-- 139
LE+ + N + DL E + + G+PL + ++G +L + +W+ L++L
Sbjct: 298 LEIL---SLFVNMKKADLPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYLKQLQN 353
Query: 140 ---KLITDPNIY------KVLKISYDGLNWEEKEIFLDVACFFKGEDVDFVTRV-----Q 185
K I + Y + + IS + L + K+ + D++ K DV T+V
Sbjct: 354 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQK--DVKVPTKVLCILWD 411
Query: 186 DDPTSMHNGLNTLVEMSLITISAN----RLQMHDI------------LQELGKTIILQ-E 228
+ + + L V SL+ N R +HD+ LQ+L K II Q +
Sbjct: 412 METEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQ 471
Query: 229 SFKEP 233
+ +P
Sbjct: 472 RYHQP 476
>pdb|3PXI|AA Chain a, Structure Of Meca108:clpc
pdb|3PXI|BB Chain b, Structure Of Meca108:clpc
pdb|3PXI|CC Chain c, Structure Of Meca108:clpc
Length = 111
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 13/74 (17%)
Query: 345 PYSKVEQIWIGEKKAFKLKFINLYNSRYLTRLPEFSEIPNLERINLSGSELERLPATIKQ 404
+ K EQ E+K KL+F+ R +F ++ +L ++N++GS T+
Sbjct: 3 DFQKEEQAVNQEEKEQKLQFV--------LRFGDFEDVISLSKLNVNGS-----KTTLYS 49
Query: 405 FSQLRYLYLRNCNM 418
F YLY+ CNM
Sbjct: 50 FENRYYLYVDFCNM 63
>pdb|2Y1R|I Chain I, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|J Chain J, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|K Chain K, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|L Chain L, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|M Chain M, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|N Chain N, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|O Chain O, Structure Of Meca121 & Clpc N-Domain Complex
pdb|2Y1R|P Chain P, Structure Of Meca121 & Clpc N-Domain Complex
pdb|3PXG|AA Chain a, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|BB Chain b, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|CC Chain c, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|DD Chain d, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|EE Chain e, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|FF Chain f, Structure Of Meca121 And Clpc1-485 Complex
Length = 98
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 13/63 (20%)
Query: 356 EKKAFKLKFINLYNSRYLTRLPEFSEIPNLERINLSGSELERLPATIKQFSQLRYLYLRN 415
E+K KL+F+ R +F ++ +L ++N++GS T+ F YLY+
Sbjct: 1 EEKEQKLQFV--------LRFGDFEDVISLSKLNVNGS-----KTTLYSFENRYYLYVDF 47
Query: 416 CNM 418
CNM
Sbjct: 48 CNM 50
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 56/140 (40%), Gaps = 31/140 (22%)
Query: 385 LERINLSGSELERLPATIKQFSQLRYLYLRNCNMXXXXXXXXXXXXXXDASNCKRLQSLP 444
L R+ L+G+ L LPA IK S LR L L + RL SLP
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSH----------------------NRLTSLP 286
Query: 445 -EISSCLEELDISILEKLSKTTFPIKHGCSLMQFEFQNCWELKENKILEDSELRIQHMAI 503
E+ SC + + + TT P + G +L +F E LE L+I
Sbjct: 287 AELGSCFQLKYFYFFDNMV-TTLPWEFG-NLCNLQFLGV----EGNPLEKQFLKILTEKS 340
Query: 504 ASLRLFYEKEQLYCPSILLP 523
+ +FY ++ P I LP
Sbjct: 341 VTGLIFYLRDNR--PEIPLP 358
>pdb|2V84|A Chain A, Crystal Structure Of The Tp0655 (Tppotd) Lipoprotein Of
Treponema Pallidum
Length = 343
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 11 TITPNIKKRLQQRKVLIVLDDVDDNSKNF------AGGLELFSPGSRIIITTRDKRLLDK 64
T T IKK QQ V +V DD N F A G +L P + + K LL+K
Sbjct: 36 TPTSLIKKFEQQYNVQVVYDDYASNEDMFAKLSIGASGYDLVVPSGDFVSIMKRKHLLEK 95
Query: 65 RRVENVYEVKGLK 77
+ + V+ +K
Sbjct: 96 IDLSKIPNVQFIK 108
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 358 KAFKLKFIN--LYNSRYLTRLPE-FSEIPNLERINLSGSELERLPATIKQFSQLRYLYLR 414
+AF+L + ++ L LP+ + LE + L+ + L LPA+I ++LR L +R
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIR 158
Query: 415 NC 416
C
Sbjct: 159 AC 160
>pdb|4GLP|A Chain A, The Crystal Structure Of Soluble Human Cd14 Reveals A Bent
Solenoid With A Hydrophobic Amino-terminal Pocket
Length = 310
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 3/56 (5%)
Query: 337 NYLIELNLPYSKVEQIWIGEKKAFKLKFINLYNSRYLTRLPEFSEIPNLERINLSG 392
+ L LNL ++ +EQ+ G KL+ ++L ++R L R P+ E+P ++ + L G
Sbjct: 251 SALNSLNLSFAGLEQVPKGLPA--KLRVLDLSSNR-LNRAPQPDELPEVDNLTLDG 303
>pdb|3JTP|A Chain A, Crystal Structure Of The C-Terminal Domain Of Meca
pdb|3JTP|B Chain B, Crystal Structure Of The C-Terminal Domain Of Meca
pdb|3JTP|C Chain C, Crystal Structure Of The C-Terminal Domain Of Meca
pdb|3JTP|D Chain D, Crystal Structure Of The C-Terminal Domain Of Meca
Length = 98
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 13/63 (20%)
Query: 356 EKKAFKLKFINLYNSRYLTRLPEFSEIPNLERINLSGSELERLPATIKQFSQLRYLYLRN 415
E+K KL+F+ R +F ++ +L ++N++GS T+ F YLY+
Sbjct: 1 EEKEQKLQFV--------LRFGDFEDVISLSKLNVNGS-----KTTLYSFENRYYLYVDF 47
Query: 416 CNM 418
C+M
Sbjct: 48 CDM 50
>pdb|1KOO|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 327 LKTLPFSFEPNYLIELNLPYSKVEQIWIGEKKAFKLKFINLYNSRYLTRLPEFSEI---- 382
L++ P N + LN S + I E+ +L +NL N+R L RL + S I
Sbjct: 137 LRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNR-LYRLDDMSSIVQKA 195
Query: 383 PNLERINLSGSELE 396
PNL+ +NLSG+EL+
Sbjct: 196 PNLKILNLSGNELK 209
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/56 (21%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 361 KLKFINLYNSRYLTRLPEFSEIPNLERINLSGSELERLP-ATIKQFSQLRYLYLRN 415
K+K ++L+N+R ++ + + + L+ +N++ ++L+ +P + + L+Y++L +
Sbjct: 451 KVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHD 506
>pdb|1KOH|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 327 LKTLPFSFEPNYLIELNLPYSKVEQIWIGEKKAFKLKFINLYNSRYLTRLPEFSEI---- 382
L++ P N + LN S + I E+ +L +NL N+R L RL + S I
Sbjct: 137 LRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNR-LYRLDDMSSIVQKA 195
Query: 383 PNLERINLSGSELE 396
PNL+ +NLSG+EL+
Sbjct: 196 PNLKILNLSGNELK 209
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
0.320 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,711,124
Number of Sequences: 62578
Number of extensions: 824896
Number of successful extensions: 1760
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 1746
Number of HSP's gapped (non-prelim): 47
length of query: 681
length of database: 14,973,337
effective HSP length: 105
effective length of query: 576
effective length of database: 8,402,647
effective search space: 4839924672
effective search space used: 4839924672
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)