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= 041526
(252 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LFR|A Chain A, The Crystal Structure Of A Cbs Domain From A Putative
Metal Ion Transporter Bound To Amp From Pseudomonas
Syringae To 1.55a
pdb|3LFR|B Chain B, The Crystal Structure Of A Cbs Domain From A Putative
Metal Ion Transporter Bound To Amp From Pseudomonas
Syringae To 1.55a
Length = 136
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/97 (45%), Positives = 64/97 (65%), Gaps = 2/97 (2%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV + D+++G+ A DLL + K + +S V + +PA FVP+S + LLREFR
Sbjct: 40 PVIGESHDDVLGVLLAKDLLPLILKADG-DSDDVKKLL-RPATFVPESKRLNVLLREFRA 97
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEIFDESD 98
H A+V++EYGG G+VT+EDV+E+IVG+I DE D
Sbjct: 98 NHNHXAIVIDEYGGVAGLVTIEDVLEQIVGDIEDEHD 134
>pdb|3JTF|A Chain A, The Cbs Domain Pair Structure Of A Magnesium And Cobalt
Efflux Protein From Bordetella Parapertussis In Complex
With Amp
pdb|3JTF|B Chain B, The Cbs Domain Pair Structure Of A Magnesium And Cobalt
Efflux Protein From Bordetella Parapertussis In Complex
With Amp
Length = 129
Score = 77.4 bits (189), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 42/92 (45%), Positives = 60/92 (65%), Gaps = 5/92 (5%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV+E DNI+GI A DLL Y + L + V +PA F+P+ + LLREFR
Sbjct: 42 PVYEDDRDNIIGILLAKDLLRYXLEPALDIRSLV-----RPAVFIPEVKRLNVLLREFRA 96
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEI 93
+ H+A+V++E+GG G+VT EDV+E+IVG+I
Sbjct: 97 SRNHLAIVIDEHGGISGLVTXEDVLEQIVGDI 128
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 55/164 (33%), Positives = 86/164 (52%), Gaps = 11/164 (6%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQK-GELLESTKVADMAHKPAYFVPDSMSVWNLLREFR 60
PV + D+I GI A DLL + + E KV + A VP+S V L+EFR
Sbjct: 104 PVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVL----RQAVVVPESKRVDRXLKEFR 159
Query: 61 IRKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEIFDESDSKEEIQKKTGYIVMRAEGIYDV 120
++ H A+V++E+GG G+VT+ED++E IVGEI E ++ + + V
Sbjct: 160 SQRYHXAIVIDEFGGVSGLVTIEDILELIVGEI-----EDEYDEEDDIDFRQLSRHTWTV 214
Query: 121 DANTSIDQLSEDLNIKMPEGHQYETVSGFVCEAFGYIPRTGESI 164
A SI+ +E + + +T+ G V +AFG++P GE+I
Sbjct: 215 RALASIEDFNEAFGTHFSD-EEVDTIGGLVXQAFGHLPARGETI 257
>pdb|3OI8|A Chain A, The Crystal Structure Of Functionally Unknown Conserved
Protein Domain From Neisseria Meningitidis Mc58
pdb|3OI8|B Chain B, The Crystal Structure Of Functionally Unknown Conserved
Protein Domain From Neisseria Meningitidis Mc58
Length = 156
Score = 71.2 bits (173), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 36/86 (41%), Positives = 53/86 (61%), Gaps = 4/86 (4%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV + D ++GI +A DLL Y E + +PA FVP+ S+ LL+EFR
Sbjct: 75 PVIGEDKDEVLGILHAKDLLKYXFNPEQFHLKSIL----RPAVFVPEGKSLTALLKEFRE 130
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVE 87
++ H A+V++EYGGT G+VT ED++E
Sbjct: 131 QRNHXAIVIDEYGGTSGLVTFEDIIE 156
>pdb|3NQR|A Chain A, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|B Chain B, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|C Chain C, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|D Chain D, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
Length = 127
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 38/92 (41%), Positives = 55/92 (59%), Gaps = 5/92 (5%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQK-GELLESTKVADMAHKPAYFVPDSMSVWNLLREFR 60
PV + D+I GI A DLL + + E KV + A VP+S V L+EFR
Sbjct: 40 PVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVL----RTAVVVPESKRVDRXLKEFR 95
Query: 61 IRKVHMAVVLNEYGGTVGVVTLEDVVEEIVGE 92
++ H A+V++E+GG G+VT+ED++E IVGE
Sbjct: 96 SQRYHXAIVIDEFGGVSGLVTIEDILELIVGE 127
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 60.5 bits (145), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 38/98 (38%), Positives = 50/98 (51%), Gaps = 4/98 (4%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV +D+ VGI A LL GE LE + D+ K FVP+S+S LL FR
Sbjct: 79 PVCRNNVDDXVGIISAKQLLSESIAGERLE---LVDLV-KNCNFVPNSLSGXELLEHFRT 134
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEIFDESDS 99
V++EYG G+VTL+D + + GE F E S
Sbjct: 135 TGSQXVFVVDEYGDLKGLVTLQDXXDALTGEFFQEDGS 172
>pdb|3LV9|A Chain A, Crystal Structure Of Cbs Domain Of A Putative Transporter
From Clostridium Difficile 630
Length = 148
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 57/92 (61%), Gaps = 4/92 (4%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV + D+I+G + DL Y QK + E+ + + ++ +++++ L R
Sbjct: 60 PVCRKNKDDILGFVHIRDL--YNQK--INENKIELEEILRDIIYISENLTIDKALERIRK 115
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEI 93
K+ +A+V++EYGGT GVVT+ED++EEIVGEI
Sbjct: 116 EKLQLAIVVDEYGGTSGVVTIEDILEEIVGEI 147
>pdb|3OCO|A Chain A, The Crystal Structure Of A Hemolysin-Like Protein
Containing Cbs Domain Of Oenococcus Oeni Psu
pdb|3OCO|B Chain B, The Crystal Structure Of A Hemolysin-Like Protein
Containing Cbs Domain Of Oenococcus Oeni Psu
Length = 153
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 55/93 (59%), Gaps = 4/93 (4%)
Query: 9 DNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRIRKVHMAV 68
D I+G AY D+ V++ + + K++ + + VP++ V ++ E +V A+
Sbjct: 65 DKIIGYAYNYDI---VRQARIDDKAKISTIX-RDIVSVPENXKVPDVXEEXSAHRVPXAI 120
Query: 69 VLNEYGGTVGVVTLEDVVEEIVGEIFDESDSKE 101
V++EYGGT G++T +DV EE+ G + DE D ++
Sbjct: 121 VIDEYGGTSGIITDKDVYEELFGNLRDEQDDED 153
>pdb|3I8N|A Chain A, A Domain Of A Conserved Functionally Known Protein From
Vibrio Parahaemolyticus Rimd 2210633.
pdb|3I8N|B Chain B, A Domain Of A Conserved Functionally Known Protein From
Vibrio Parahaemolyticus Rimd 2210633
Length = 130
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 50/90 (55%), Gaps = 3/90 (3%)
Query: 3 VFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRIR 62
V+ ++ DNI+G + ++L Q G K +P V ++ ++ + +
Sbjct: 44 VYSEQKDNIIGFVHRLELFKXQQSGS---GQKQLGAVXRPIQVVLNNTALPKVFDQXXTH 100
Query: 63 KVHMAVVLNEYGGTVGVVTLEDVVEEIVGE 92
++ +A+V++EYG +G+VTLED+ E +VGE
Sbjct: 101 RLQLALVVDEYGTVLGLVTLEDIFEHLVGE 130
>pdb|3HF7|A Chain A, The Crystal Structure Of A Cbs-Domain Pair With Bound Amp
From Klebsiella Pneumoniae To 2.75a
Length = 130
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 34/49 (69%)
Query: 44 YFVPDSMSVWNLLREFRIRKVHMAVVLNEYGGTVGVVTLEDVVEEIVGE 92
YFVP+ + L +F+ K + +V++EYG G+VT+ED++EEIVG+
Sbjct: 80 YFVPEGTPLSTQLVKFQRNKKKVGLVVDEYGDIQGLVTVEDILEEIVGD 128
>pdb|3OCM|A Chain A, The Crystal Structure Of A Domain From A Possible Membrane
Protein Of Bordetella Parapertussis
pdb|3OCM|B Chain B, The Crystal Structure Of A Domain From A Possible Membrane
Protein Of Bordetella Parapertussis
Length = 173
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 5/95 (5%)
Query: 2 PVFEQRIDNIVGIAYAMDLLDYVQKGELLESTKVADMAHKPAYFVPDSMSVWNLLREFRI 61
PV +D +VGI A DL+ +L+ +V + V +S+ + L +
Sbjct: 73 PVCRGSLDEVVGIGRAKDLV-----ADLITEGRVRRNRLRDPIIVHESIGILRLXDTLKR 127
Query: 62 RKVHMAVVLNEYGGTVGVVTLEDVVEEIVGEIFDE 96
+ + +V +E+G G+VT DV E I GE DE
Sbjct: 128 SRGQLVLVADEFGAIEGLVTPIDVFEAIAGEFPDE 162
>pdb|2OAI|A Chain A, The Structure Of Transporter Associated Domain Corc_hlyc
From A Xylella Fastidiosa Temecula1 Hemolysin.
pdb|2R8D|A Chain A, The Structure Of Transporter Associated Domain Corc_hlyc
From A Xylella Fastidiosa Temecula1 Hemolysin In Complex
With Mg++ And Mn++
Length = 94
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 99 SKEEIQKKTGYIVMRAEGIYDVDANTSIDQLSEDLNIKMPEG--HQYETVSGFVCEAFGY 156
S E + V R +G + +D I++L E L ++P+G + Y T++G FG
Sbjct: 1 SNAENTDEDALXVTREDGSFLIDGTLPIEELREVLGAELPDGEENNYHTLAGXCISYFGR 60
Query: 157 IPRTGE 162
IP GE
Sbjct: 61 IPHVGE 66
>pdb|2P13|A Chain A, Transporter Associated Domain Corc_hlyc From Nitrosomonas
Europaea
pdb|2P13|B Chain B, Transporter Associated Domain Corc_hlyc From Nitrosomonas
Europaea
Length = 90
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 113 RAEGIYDVDANTSIDQLSEDLNIKM-PEGHQYETVSGFVCEAFGYIPRTGESI 164
+A+G + D SI + S L + E +Y T+ G++ FGYIP GE I
Sbjct: 12 QADGTWLXDGWISIRKASNLLEHDLVDEAERYSTLGGYLLWQFGYIPAAGEQI 64
>pdb|2P3H|A Chain A, Crystal Structure Of The Corc_hlyc Domain Of A Putative
Corynebacterium Glutamicum Hemolysin
Length = 101
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 120 VDANTSIDQLSEDLNIKMPEGHQYETVSGFVCEAFGYIPRTGESI 164
+D +T +D++ + ++PEG YET+SG + + + +TG+ I
Sbjct: 16 IDGDTPLDEVERAIGYELPEG-DYETISGLLFDHANALLKTGDVI 59
>pdb|2PLS|A Chain A, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|B Chain B, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|C Chain C, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|D Chain D, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|E Chain E, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|F Chain F, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|G Chain G, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|H Chain H, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|I Chain I, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|J Chain J, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|K Chain K, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
pdb|2PLS|L Chain L, Structural Genomics, The Crystal Structure Of The CorcHLYC
Transporter Associated Domain Of A Cbs Domain Protein
From Chlorobium Tepidum Tls
Length = 86
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 111 VMRAEGIYDVDANTSIDQLSEDLNIK-MPEGHQ--YETVSGFVCEAFGYIPRTGE 162
V R +G + +D ++ +L + L ++ +PE + Y T+SG + G +P+TG+
Sbjct: 4 VQREDGSWLLDGLIAVPELKDTLGLRAVPEEEKGVYHTLSGXIXWLLGRLPQTGD 58
>pdb|3LLB|A Chain A, The Crystal Structure Of The Protein Pa3983 With Unknown
Function From Pseudomonas Aeruginosa Pao1
Length = 83
Score = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 109 YIVMRAEGIYDVDANTSIDQLSEDLNIKMPEGHQYETVSGFVCEAFGYIPRTGESI 164
YI G + V A T +D ++ + + +++TV G V AFG++P+ E +
Sbjct: 2 YIKPLPSGDFIVKALTPVDAFNDFFGSEFSD-EEFDTVGGLVMSAFGHLPKRNEVV 56
>pdb|2YXL|A Chain A, Crystal Structure Of Ph0851
Length = 450
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 76 TVGVVTLEDVVEEIVGEIFDESDSKEEIQKKTGYIVMRAEGIYDVDANTSIDQ 128
++ V TL+ VEE++GE+ E D E ++ + +++ +G Y+ D +++ ++
Sbjct: 188 SIRVNTLKANVEEVIGEL--EEDGVEVVRSERVPTILKIKGPYNFDTSSAFNE 238
>pdb|3M2M|A Chain A, Rat Galectin-1 Complex With Lactose
pdb|3M2M|B Chain B, Rat Galectin-1 Complex With Lactose
pdb|3M2M|C Chain C, Rat Galectin-1 Complex With Lactose
pdb|3M2M|D Chain D, Rat Galectin-1 Complex With Lactose
pdb|3M2M|E Chain E, Rat Galectin-1 Complex With Lactose
pdb|3M2M|F Chain F, Rat Galectin-1 Complex With Lactose
pdb|3M2M|G Chain G, Rat Galectin-1 Complex With Lactose
pdb|3M2M|H Chain H, Rat Galectin-1 Complex With Lactose
Length = 134
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 132 DLNIKMPEGHQYETVSGFVCEAFGYIPRTGE 162
DL IK+P+GH+++ + EA Y+ G+
Sbjct: 95 DLTIKLPDGHEFKFPNRLNMEAINYMAADGD 125
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
0.316 0.134 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,877,146
Number of Sequences: 62578
Number of extensions: 260973
Number of successful extensions: 758
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 731
Number of HSP's gapped (non-prelim): 31
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)