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= 008626
(559 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp Family
Of Plant Myb-Related Dna Binding Motifs Of The
Arabidopsis Response Regulators
Length = 64
Score = 75.1 bits (183), Expect = 9e-14, Method: Composition-based stats.
Identities = 34/61 (55%), Positives = 48/61 (78%)
Query: 315 RKKMKVDWTPELHKKFVQAVEQLGVDQAIPSRILELMKVEGLTRHNVASHLQKYRMHRRH 374
+KK +V WT ELH KF+ AV+ LGV++A+P +IL+LM V+ LTR NVASHLQK+R+ +
Sbjct: 3 QKKPRVLWTHELHNKFLAAVDHLGVERAVPKKILDLMNVDKLTRENVASHLQKFRVALKK 62
Query: 375 I 375
+
Sbjct: 63 V 63
>pdb|1L5Y|A Chain A, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of
Sinorhizobium Meliloti Dctd
pdb|1L5Y|B Chain B, Crystal Structure Of Mg2+ / Bef3-bound Receiver Domain Of
Sinorhizobium Meliloti Dctd
pdb|1L5Z|A Chain A, Crystal Structure Of The E121k Substitution Of The
Receiver Domain Of Sinorhizobium Meliloti Dctd
Length = 155
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 30/108 (27%), Positives = 50/108 (46%), Gaps = 5/108 (4%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V L+D D ++ LE + VS+F + EAL+ S + + I ++ DG
Sbjct: 6 VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLS--ADFAGIVISDIRMPGMDGL 63
Query: 80 F---KFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
K L DLP I+ + + ++ I GA +F+ KP + D+L
Sbjct: 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRL 111
>pdb|1QKK|A Chain A, Crystal Structure Of The Receiver Domain And Linker Region
Of Dctd From Sinorhizobium Meliloti
Length = 155
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 30/108 (27%), Positives = 50/108 (46%), Gaps = 5/108 (4%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V L+D D ++ LE + VS+F + EAL+ S + + I ++ DG
Sbjct: 6 VFLIDDDRDLRKAMQQTLELAGFTVSSFASATEALAGLS--ADFAGIVISDIRMPGMDGL 63
Query: 80 F---KFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
K L DLP I+ + + ++ I GA +F+ KP + D+L
Sbjct: 64 ALFRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRL 111
>pdb|3CG0|A Chain A, Crystal Structure Of Signal Receiver Domain Of Modulated
Diguanylate Cyclase From Desulfovibrio Desulfuricans
G20, An Example Of Alternate Folding
pdb|3CG0|B Chain B, Crystal Structure Of Signal Receiver Domain Of Modulated
Diguanylate Cyclase From Desulfovibrio Desulfuricans
G20, An Example Of Alternate Folding
pdb|3CG0|C Chain C, Crystal Structure Of Signal Receiver Domain Of Modulated
Diguanylate Cyclase From Desulfovibrio Desulfuricans
G20, An Example Of Alternate Folding
pdb|3CG0|D Chain D, Crystal Structure Of Signal Receiver Domain Of Modulated
Diguanylate Cyclase From Desulfovibrio Desulfuricans
G20, An Example Of Alternate Folding
Length = 140
Score = 43.1 bits (100), Expect = 4e-04, Method: Composition-based stats.
Identities = 36/135 (26%), Positives = 66/135 (48%), Gaps = 17/135 (12%)
Query: 8 LSAWKDFPKGLRVLLLDQDSSAAAELKFKLEAMDY-IVSTFYNENEALSAFSD-KPENFH 65
L+A D P VL+++ AAA L+ +LE++ Y ++ F N EA+ D +P+
Sbjct: 3 LTASDDLPG---VLIVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLRPD--- 56
Query: 66 VAIVEVTTSNTDGSFKFLETAK------DLPTIITSNIHCLSTMMKCIALGAVEFLRKPL 119
+A+V++ G+ +ETA +LP I ++ + T + + +L KP+
Sbjct: 57 IALVDIMLC---GALDGVETAARLAAGCNLPIIFITSSQDVETFQRAKRVNPFGYLAKPV 113
Query: 120 SEDKLRNLWQHVVHK 134
+ D L + +HK
Sbjct: 114 AADTLHRSIEMAIHK 128
>pdb|3F7A|A Chain A, Structure Of Orthorhombic Crystal Form Of Pseudomonas
Aeruginosa Rssb
pdb|3F7A|B Chain B, Structure Of Orthorhombic Crystal Form Of Pseudomonas
Aeruginosa Rssb
Length = 394
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 58/122 (47%), Gaps = 10/122 (8%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAF-SDKPENFHVAIVEVTTSNTDG 78
+L++D D L LE ++ V N + L F S++P+ + I ++ DG
Sbjct: 8 LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQPD---LVICDLRXPQIDG 64
Query: 79 ---SFKFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLRNLWQHVVHKA 135
+ +TA + P I+ S +S ++ + LGA ++L KPL + + +H V +A
Sbjct: 65 LELIRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKPLED---LAVLEHSVRRA 121
Query: 136 FN 137
+
Sbjct: 122 LD 123
>pdb|3JTE|A Chain A, Crystal Structure Of Response Regulator Receiver Domain
Protein From Clostridium Thermocellum
Length = 143
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 29/109 (26%), Positives = 48/109 (44%), Gaps = 3/109 (2%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDG 78
++L++D +S+ +KF LE V T + E L F++ + V I ++ G
Sbjct: 5 KILVIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSG 64
Query: 79 SFKFLETAKDLP---TIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
E K P II + L + + GA E+LRKP++ L
Sbjct: 65 MDILREIKKITPHMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDL 113
>pdb|3EQ2|A Chain A, Structure Of Hexagonal Crystal Form Of Pseudomonas
Aeruginosa Rssb
pdb|3EQ2|B Chain B, Structure Of Hexagonal Crystal Form Of Pseudomonas
Aeruginosa Rssb
Length = 394
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 57/122 (46%), Gaps = 10/122 (8%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAF-SDKPENFHVAIVEVTTSNTDG 78
+L++D D L LE ++ V N + L F S++P+ + I ++ DG
Sbjct: 8 LLIIDDDEVVRESLAAYLEDSNFKVLQALNGLQGLQIFESEQPD---LVICDLRXPQIDG 64
Query: 79 ---SFKFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLRNLWQHVVHKA 135
+ +TA + P I+ S S ++ + LGA ++L KPL + + +H V +A
Sbjct: 65 LELIRRIRQTASETPIIVLSGAGVXSDAVEALRLGAADYLIKPLED---LAVLEHSVRRA 121
Query: 136 FN 137
+
Sbjct: 122 LD 123
>pdb|1ZIT|A Chain A, Structure Of The Receiver Domain Of Ntrc4 From Aquifex
Aeolicus
pdb|2JRL|A Chain A, Solution Structure Of The Beryllofluoride-Activated Ntrc4
Receiver Domain Dimer
pdb|2JRL|B Chain B, Solution Structure Of The Beryllofluoride-Activated Ntrc4
Receiver Domain Dimer
Length = 121
Score = 36.6 bits (83), Expect = 0.040, Method: Composition-based stats.
Identities = 33/109 (30%), Positives = 49/109 (44%), Gaps = 5/109 (4%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDG 78
RVL++D + S + L LE Y T EA K F V +++V + DG
Sbjct: 3 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKI--KELFFPVIVLDVWMPDGDG 60
Query: 79 S--FKFL-ETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
F+ E + D I+ + + T +K I GA EFL KP S ++
Sbjct: 61 VNFIDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERF 109
>pdb|1KRW|A Chain A, Solution Structure And Backbone Dynamics Of
Beryllofluoride- Activated Ntrc Receiver Domain
Length = 124
Score = 35.4 bits (80), Expect = 0.093, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V ++D DSS L+ L +TF N NE L+A + K + V + ++ DG
Sbjct: 6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD--VLLSDIRMPGMDG- 62
Query: 80 FKFLETAKD----LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDK 123
L+ K LP II + L + GA ++L KP D+
Sbjct: 63 LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110
>pdb|1J56|A Chain A, Minimized Average Structure Of Beryllofluoride-Activated
Ntrc Receiver Domain: Model Structure Incorporating
Active Site Contacts
pdb|1KRX|A Chain A, Solution Structure Of Beryllofluoride-Activated Ntrc
Receiver Domain: Model Structures Incorporating Active
Site Contacts
pdb|1NTR|A Chain A, Solution Structure Of The N-Terminal Receiver Domain Of
Ntrc
Length = 124
Score = 35.0 bits (79), Expect = 0.099, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V ++D DSS L+ L +TF N NE L+A + K + V + ++ DG
Sbjct: 6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD--VLLSDIRMPGMDG- 62
Query: 80 FKFLETAKD----LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDK 123
L+ K LP II + L + GA ++L KP D+
Sbjct: 63 LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110
>pdb|1DC7|A Chain A, Structure Of A Transiently Phosphorylated "switch" In
Bacterial Signal Transduction
Length = 124
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V ++D DSS L+ L +TF N NE L+A + K + V + ++ DG
Sbjct: 6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD--VLLSDIRMPGMDG- 62
Query: 80 FKFLETAKD----LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDK 123
L+ K LP II + L + GA ++L KP D+
Sbjct: 63 LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDE 110
>pdb|1NXO|A Chain A, Micarec Ph7.0
pdb|1NXP|A Chain A, Micarec Ph4.5
pdb|1NXS|A Chain A, Micarec Ph4.9
pdb|1NXV|A Chain A, Micarec Ph 4.2
pdb|1NXW|A Chain A, Micarec Ph 5.1
pdb|1NXX|A Chain A, Micarec Ph 5.5
pdb|2A9O|A Chain A, Crystal Structures Of An Activated Yycf Homologue, The
Essential Response Regulator From S.Pneumoniae In
Complex With Bef3 And The Effect Of Ph On Bef3 Binding,
Possible Phosphate In The Active Site
pdb|2A9P|A Chain A, Medium Resolution Bef3 Bound Rr02-Rec
pdb|2A9Q|A Chain A, Low Resolution Structure Rr02-rec On Bef3 Bound
Length = 120
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 29/114 (25%), Positives = 56/114 (49%), Gaps = 14/114 (12%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAF-SDKPENFHVAIVEVTTSNTD 77
++L++D + + +KF + Y V T +N EAL F +++P+ + I+++ D
Sbjct: 3 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPD---IIILDLMLPEID 59
Query: 78 GSFKFLETAK------DLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLR 125
G LE AK +P ++ S + + LGA +++ KP S +L+
Sbjct: 60 G----LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQ 109
>pdb|1NXT|A Chain A, Micarec Ph 4.0
pdb|2A9R|A Chain A, Rr02-Rec Phosphate In The Active Site
Length = 120
Score = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 29/114 (25%), Positives = 55/114 (48%), Gaps = 14/114 (12%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAF-SDKPENFHVAIVEVTTSNTD 77
++L++D + + +KF + Y V T +N EAL F +++P+ + I+ + D
Sbjct: 3 KILIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPD---IIILXLMLPEID 59
Query: 78 GSFKFLETAK------DLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLR 125
G LE AK +P ++ S + + LGA +++ KP S +L+
Sbjct: 60 G----LEVAKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQ 109
>pdb|1DC8|A Chain A, Structure Of A Transiently Phosphorylated "switch" In
Bacterial Signal Transduction
Length = 124
Score = 33.9 bits (76), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 7/117 (5%)
Query: 20 VLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDGS 79
V ++D DSS L+ L +TF N NE L+A + K + V + + DG
Sbjct: 6 VWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPD--VLLSXIRMPGMDG- 62
Query: 80 FKFLETAKD----LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLRNLWQHVV 132
L+ K LP II + L + GA ++L KP D+ L + +
Sbjct: 63 LALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAI 119
>pdb|3DZD|A Chain A, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
pdb|3DZD|B Chain B, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
Length = 368
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 7/116 (6%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSDKPENFHVAIVEVTTSNTDG 78
RVL++D + S + L LE Y T EA K F V +++V + DG
Sbjct: 2 RVLVVDDEESITSSLSAILEEEGYHPDTAKTLREAEKKI--KELFFPVIVLDVWXPDGDG 59
Query: 79 SFKFLETAK----DLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKLRNLWQH 130
F++ K D I+ + + T +K I GA EFL KP S ++ +H
Sbjct: 60 -VNFIDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKH 114
>pdb|3CJN|A Chain A, Crystal Structure Of Transcriptional Regulator, Marr
Family, From Silicibacter Pomeroyi
Length = 162
Score = 33.5 bits (75), Expect = 0.35, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 339 VDQAIPSRILELMKVEGLTRHNVASHLQKYRMHRRHILPKED---DRKWPHARDQMLRNY 395
V+Q+ SR L+ ++ +GL R V S Q R R ++ P DR WPH R R +
Sbjct: 78 VEQSTLSRALDGLQADGLVRREVDSDDQ--RSSRVYLTPAGRAVYDRLWPHXRASHDRXF 135
>pdb|3Q9S|A Chain A, Crystal Structure Of Rra(1-215) From Deinococcus
Radiodurans
Length = 249
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 6/109 (5%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVS-TFYNENEALSAFSDKPENFHVAIVEVTTSNTD 77
R+L+++ D A L+ L Y+V N + A D P+ + ++++ + D
Sbjct: 39 RILVIEDDHDIANVLRXDLTDAGYVVDHADSAXNGLIKAREDHPD---LILLDLGLPDFD 95
Query: 78 GS--FKFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
G + L LP I+ + + ++ + LGA ++L KP D+L
Sbjct: 96 GGDVVQRLRKNSALPIIVLTARDTVEEKVRLLGLGADDYLIKPFHPDEL 144
>pdb|2QZJ|A Chain A, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
pdb|2QZJ|B Chain B, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
pdb|2QZJ|C Chain C, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
pdb|2QZJ|D Chain D, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
pdb|2QZJ|E Chain E, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
pdb|2QZJ|F Chain F, Crystal Structure Of A Two-Component Response Regulator
From Clostridium Difficile
Length = 136
Score = 32.3 bits (72), Expect = 0.75, Method: Composition-based stats.
Identities = 26/105 (24%), Positives = 50/105 (47%), Gaps = 6/105 (5%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSA-FSDKPENFHVAIVEVTTSNTD 77
++L++D D +LK LE + YN EA+ FS+K + + +E+ S+ D
Sbjct: 6 KILIIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSNK---YDLIFLEIILSDGD 62
Query: 78 G--SFKFLETAKDLPTIITSNIHCLSTMMKCIALGAVEFLRKPLS 120
G K + P + + I+ +++ + G ++L KPL+
Sbjct: 63 GWTLCKKIRNVTTCPIVYXTYINEDQSILNALNSGGDDYLIKPLN 107
>pdb|2C4X|A Chain A, Structural Basis For The Promiscuous Specificity Of The
Carbohydrate-Binding Modules From The Beta-Sandwich
Super Family
Length = 260
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 45/97 (46%), Gaps = 11/97 (11%)
Query: 412 LVP-TGPVYPVW---GAPSNHLAAVQMWAPPGYPPWQQAESWN--WKPYPGMPADAWGCP 465
+VP T + +W GAP +AA+Q + P P W + WN WK Y + D W
Sbjct: 160 VVPGTTXTFRIWIPSGAP---IAAIQPYIXPHTPDWSEV-LWNSTWKGYTXVKTDDWNEI 215
Query: 466 VMPLPNGPYSSFPQGASGYHNSGVDDNSYAMPQNSVD 502
+ LP ++PQ G +D+ + + +++D
Sbjct: 216 TLTLPEDVDPTWPQ-QXGIQVQTIDEGEFTIYVDAID 251
>pdb|2ZWM|A Chain A, Crystal Structure Of Yycf Receiver Domain From Bacillus
Subtilis
pdb|2ZWM|B Chain B, Crystal Structure Of Yycf Receiver Domain From Bacillus
Subtilis
Length = 130
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 26/109 (23%), Positives = 53/109 (48%), Gaps = 6/109 (5%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSD-KPENFHVAIVEVTTSNTD 77
++L++D + A L+F L Y V ++ NEA+ + +P+ + ++++ N D
Sbjct: 4 KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQPD---LILLDIMLPNKD 60
Query: 78 GSFKFLETAK--DLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
G E K D+P I+ + + + +GA +++ KP S +L
Sbjct: 61 GVEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTREL 109
>pdb|3F6P|A Chain A, Crystal Structure Of Unphosphorelated Receiver Domain Of
Yycf
Length = 120
Score = 31.2 bits (69), Expect = 1.5, Method: Composition-based stats.
Identities = 26/109 (23%), Positives = 53/109 (48%), Gaps = 6/109 (5%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALSAFSD-KPENFHVAIVEVTTSNTD 77
++L++D + A L+F L Y V ++ NEA+ + +P+ + ++++ N D
Sbjct: 4 KILVVDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQPD---LILLDIMLPNKD 60
Query: 78 GSFKFLETAK--DLPTIITSNIHCLSTMMKCIALGAVEFLRKPLSEDKL 124
G E K D+P I+ + + + +GA +++ KP S +L
Sbjct: 61 GVEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTREL 109
>pdb|2WB4|A Chain A, Activated Diguanylate Cyclase Pled In Complex With
C-Di-Gmp
pdb|2WB4|B Chain B, Activated Diguanylate Cyclase Pled In Complex With
C-Di-Gmp
Length = 459
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 52/110 (47%), Gaps = 11/110 (10%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALS-AFSDKPENFHVAIVEVTTSNTD 77
R+L++D + L+ KL A Y VST + AL+ A D P+ + +++V D
Sbjct: 4 RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD---IILLDVMMPGMD 60
Query: 78 GSFKFLETAKD------LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSE 121
G F KD +P ++ + + ++ + GA +FL KP+ +
Sbjct: 61 G-FTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDD 109
>pdb|1W25|A Chain A, Response Regulator Pled In Complex With C-digmp
pdb|1W25|B Chain B, Response Regulator Pled In Complex With C-digmp
pdb|2V0N|A Chain A, Activated Response Regulator Pled In Complex With C-Digmp
And Gtp-Alpha-S
pdb|2V0N|B Chain B, Activated Response Regulator Pled In Complex With C-Digmp
And Gtp-Alpha-S
Length = 459
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 52/110 (47%), Gaps = 11/110 (10%)
Query: 19 RVLLLDQDSSAAAELKFKLEAMDYIVSTFYNENEALS-AFSDKPENFHVAIVEVTTSNTD 77
R+L++D + L+ KL A Y VST + AL+ A D P+ + +++V D
Sbjct: 3 RILVVDDIEANVRLLEAKLTAEYYEVSTAMDGPTALAMAARDLPD---IILLDVMMPGMD 59
Query: 78 GSFKFLETAKD------LPTIITSNIHCLSTMMKCIALGAVEFLRKPLSE 121
G F KD +P ++ + + ++ + GA +FL KP+ +
Sbjct: 60 G-FTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDD 108
>pdb|2C26|A Chain A, Structural Basis For The Promiscuous Specificity Of The
Carbohydrate-Binding Modules From The Beta-Sandwich
Super Family
Length = 260
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 10/89 (11%)
Query: 419 YPVW---GAPSNHLAAVQMWAPPGYPPWQQAESWN--WKPYPGMPADAWGCPVMPLPNGP 473
+ +W GAP +AA+Q + P P W + WN WK Y + D W + LP
Sbjct: 168 FRIWIPSGAP---IAAIQPYIMPHTPDWSEV-LWNSTWKGYTMVKTDDWNEITLTLPEDV 223
Query: 474 YSSFPQGASGYHNSGVDDNSYAMPQNSVD 502
++PQ G +D+ + + +++D
Sbjct: 224 DPTWPQ-QMGIQVQTIDEGEFTIYVDAID 251
>pdb|1WY5|A Chain A, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|1WY5|B Chain B, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
pdb|2E21|A Chain A, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|B Chain B, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|C Chain C, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E21|D Chain D, Crystal Structure Of Tils In A Complex With Amppnp From
Aquifex Aeolicus.
pdb|2E89|A Chain A, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|C Chain C, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|D Chain D, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
pdb|2E89|B Chain B, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
With Atp, Magnesium Ion, And L-Lysine
Length = 317
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 37/85 (43%)
Query: 180 VPQQSDNEQSVPNDKYPAPSTPQLKQGGRLLDDIDCQDNTNFSTEKESAEQDGESKFVET 239
V +++ E S+P ++ P+LK+ L+D + E+E E++ + + E
Sbjct: 189 VEDETNYEVSIPRNRIRHRVIPELKRINENLEDTFLKMVKVLRAEREFLEEEAQKLYKEV 248
Query: 240 TCGNSIAEGTLQEDKPQRPRETIVK 264
GN + L+E R I K
Sbjct: 249 KKGNCLDVKKLKEKPLALQRRVIRK 273
>pdb|2R25|B Chain B, Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef3-
Length = 133
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 52 EALSAFSDKPENFHVAIVEVTTSNTDGSFKFLETAKDL----PTIITSNIHCLSTMMKCI 107
+ + + K EN+++ ++V DG +DL P + + S + +C+
Sbjct: 41 DKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECL 100
Query: 108 ALGAVEFLRKPLSEDKLRNL 127
G FL KP+ KL+ +
Sbjct: 101 ESGMNGFLSKPIKRPKLKTI 120
>pdb|1OXB|B Chain B, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P2(1)2(1)2(1)
pdb|1OXK|B Chain B, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|D Chain D, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|F Chain F, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|H Chain H, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|J Chain J, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|L Chain L, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
Length = 134
Score = 30.0 bits (66), Expect = 3.9, Method: Composition-based stats.
Identities = 18/80 (22%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 52 EALSAFSDKPENFHVAIVEVTTSNTDGSFKFLETAKDL----PTIITSNIHCLSTMMKCI 107
+ + + K EN+++ ++V DG +DL P + + S + +C+
Sbjct: 40 DKVKELTSKGENYNMIFMDVQMPKVDGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECL 99
Query: 108 ALGAVEFLRKPLSEDKLRNL 127
G FL KP+ KL+ +
Sbjct: 100 ESGMNGFLSKPIKRPKLKTI 119
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
0.314 0.131 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,299,782
Number of Sequences: 62578
Number of extensions: 752076
Number of successful extensions: 1292
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 1279
Number of HSP's gapped (non-prelim): 34
length of query: 559
length of database: 14,973,337
effective HSP length: 104
effective length of query: 455
effective length of database: 8,465,225
effective search space: 3851677375
effective search space used: 3851677375
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)