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= 015901
(398 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F20|A Chain A, X-Ray Crystal Structure Of Protein Bt_1218 From
Bacteroides Thetaiotaomicron. Northeast Structural
Genomics Consortium Target Btr8.
pdb|2F20|B Chain B, X-Ray Crystal Structure Of Protein Bt_1218 From
Bacteroides Thetaiotaomicron. Northeast Structural
Genomics Consortium Target Btr8
Length = 240
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 92/165 (55%), Gaps = 13/165 (7%)
Query: 46 PVVRRDDDGEGFVLHCMKWGLIPSFTKKNEKPDFYK--MFNARSESVTEKASFRRLLPKS 103
P++ D+ + F WGLIP + + E + NAR++++ EK SFR + K
Sbjct: 47 PIITSSDEVQVF-----NWGLIPFWVRSEEDATEIRKXTLNARADTIFEKPSFREPIXKK 101
Query: 104 RCLAAVEGFYEWKKDGSKKQPYYVHFKDGRPLVFAALYDTWQSSE-GEILYTFTILTTSS 162
RC+ G++EW+ +G+ K PYY++ KD A +YD W + GE TF+I+TT +
Sbjct: 102 RCIVPSTGYFEWRHEGANKIPYYIYVKDEPIFSXAGIYDRWLDKDTGEEHETFSIITTDT 161
Query: 163 SAALQWLHD---RMPVILGDKESSDAWLNGS-SSSKYDTILKPYE 203
++ ++ + R P IL +E + WLN S S ++ ++LKP++
Sbjct: 162 NSLTDYIDNTKHRXPAILT-QEEEEKWLNPSLSKAEIASLLKPFD 205
>pdb|2ICU|A Chain A, Crystal Structure Of Hypothetical Protein Yedk From
Escherichia Coli
pdb|2ICU|B Chain B, Crystal Structure Of Hypothetical Protein Yedk From
Escherichia Coli
Length = 229
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 58/197 (29%), Positives = 96/197 (48%), Gaps = 13/197 (6%)
Query: 37 YNVAPGWNLPVVRRDDDGEGFVLHCMKWGLIPSFTKKNEKPDFYKMFNARSESVTEKASF 96
YNVAPG + ++ D E L + WG P + K + NAR E+ F
Sbjct: 43 YNVAPGTKVLLLSERD--EHLHLDPVFWGYAPGWWDKP------PLINARVETAATSRXF 94
Query: 97 RRLLPKSRCLAAVEGFYEWKKDGSKKQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFT 156
+ L R + +G++EWKK+G KKQP++++ DG+P+ AA+ T G+ F
Sbjct: 95 KPLWQHGRAICFADGWFEWKKEGDKKQPFFIYRADGQPIFXAAIGST-PFERGDEAEGFL 153
Query: 157 ILTTSSSAALQWLHDRMPVILGDKESSDAWLNGSSSSKYDTILKP---YEESDLVWYPVT 213
I+T ++ L +HDR P++L E++ W S K + + + W+PV+
Sbjct: 154 IVTAAADQGLVDIHDRRPLVL-SPEAAREWXRQEISGKEASEIAASGCVPANQFSWHPVS 212
Query: 214 PAMGKLSFDGPECIKEI 230
A+G + G E I+ +
Sbjct: 213 RAVGNVKNQGAELIQPV 229
>pdb|2BDV|A Chain A, X-ray Crystal Structure Of Phage-related Protein Bb2244
From Bordetella Bronchiseptica. Northeast Structural
Genomics Consortium Target Bor24
Length = 231
Score = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 58/213 (27%), Positives = 98/213 (46%), Gaps = 18/213 (8%)
Query: 25 ARTLNMDRYRPSYNVAPGWNLPVVRRDDDGEGFVLHCMKWGLIPSFTKKNEKPDFYKMFN 84
AR + D P YN+ PG P+ + L + WG P + F+ + N
Sbjct: 22 ARLIFDDVAGPRYNIPPG-TRPLTXHRLVDQAEALARLPWGYKPHGSS------FFXI-N 73
Query: 85 ARSESVTEKA-SFRRLLPKSRCLAAVEGFYEWKK--DGSK--KQPYYVHFKDGRPLVFAA 139
A+ E++ ++ + R L +G+YEWK G K KQPYY+H PL+FA
Sbjct: 74 AKLETIERHGWPWKLXIGTGRILVPADGWYEWKALDSGPKPAKQPYYIH--GDAPLLFAG 131
Query: 140 LYDTWQSSEGEILYTFTILTTSSSAALQWLHDRMPVILGDKESSDAWLNGSSS-SKYDTI 198
L + +E + + F I+T + + +HDR PV L E + W++ ++ ++ I
Sbjct: 132 LSAWRRGAELDEAHGFAIVTNDALGGMVDVHDRRPVAL-PPELAREWVDPATPVARAKEI 190
Query: 199 LKP-YEESDLVWYPVTPAMGKLSFDGPECIKEI 230
L+ E+ WYPV +G + P+ + +
Sbjct: 191 LRAGLPETAFSWYPVRQEVGSSKYQLPDAVDPL 223
>pdb|1ZN6|A Chain A, X-Ray Crystal Structure Of Protein Q7wlm8 From Bordetella
Bronchiseptica. Northeast Structural Genomics Consortium
Target Bor19
Length = 227
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 46/156 (29%), Positives = 71/156 (45%), Gaps = 12/156 (7%)
Query: 63 KWGLIPSFTKKNEKPDFYK--MFNARSESVTEKASFRRLLPKSR-CLAAVEGFYEWKKDG 119
+WG IP T+ + + K NARSE+ + +FR K++ C+ + YE
Sbjct: 61 RWGXIPPGTRPEKLAEASKKNTSNARSETAHQLWTFRNAWAKAQHCIIPADAIYEPDWRS 120
Query: 120 SKKQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFTILTTSS--SAALQWLHD-----R 172
K P DG PL A L+D ++++ GE + ++T LT ++ + H R
Sbjct: 121 GKAVPTRFTRADGAPLGIAGLWDRYRNAAGEWIDSYTXLTINADDDPLFRDYHQAGKEKR 180
Query: 173 MPVILGDKESSDAWLNGSSSSKYDTILKPYEESDLV 208
VIL D D WL ++ D +L PY LV
Sbjct: 181 XVVILPDGAYGD-WLTAPATDTRDFLL-PYPADRLV 214
>pdb|3BHQ|A Chain A, Crystal Structure Of A Putative Tetr-Family
Transcriptional Regulator (Mlr_4833) From Mesorhizobium
Loti Maff303099 At 1.54 A Resolution
pdb|3BHQ|B Chain B, Crystal Structure Of A Putative Tetr-Family
Transcriptional Regulator (Mlr_4833) From Mesorhizobium
Loti Maff303099 At 1.54 A Resolution
Length = 211
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 4/68 (5%)
Query: 117 KDGSKKQPYYVHFKDGRPLVFAALYDTWQSSEGEILYTFTILTTSS---SAALQWLHDRM 173
K G+ KQ Y HF D L F + + S +I+ + T L + + LQ L R+
Sbjct: 41 KAGASKQTVYKHFTDKETL-FGEVVLSTASQVNDIIESVTTLLSEAIFXEGGLQQLARRL 99
Query: 174 PVILGDKE 181
+L D+E
Sbjct: 100 IAVLXDEE 107
>pdb|2P9M|A Chain A, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|B Chain B, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|C Chain C, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|D Chain D, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
Length = 138
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 328 GDPDTKSVASVLSDEDTKKELQKRDY---KEFLADSKPVIDGNNKL 370
GD TK V ++ D + ++K D KE + + PV+D NNKL
Sbjct: 76 GDVXTKDVITIHEDASILEAIKKXDISGKKEEIINQLPVVDKNNKL 121
>pdb|2AEG|A Chain A, X-Ray Crystal Structure Of Protein Atu5096 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr63.
pdb|2AEG|B Chain B, X-Ray Crystal Structure Of Protein Atu5096 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr63.
pdb|2AEG|C Chain C, X-Ray Crystal Structure Of Protein Atu5096 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr63
Length = 268
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 48/194 (24%), Positives = 78/194 (40%), Gaps = 52/194 (26%)
Query: 35 PSYNVAPGWNLPVVRRDDDGEGFVLHCMKWGL-IPSFTKKNEKPDFYKMFNARSESVTEK 93
P+Y P P+VR DG+ ++H +WGL P F +K K AR++ + K
Sbjct: 28 PAYQXNPDQXGPIVRNTADGKKQLVHA-RWGLPSPIFVQK-------KAAEARADKLKAK 79
Query: 94 A------------------SFRRL-LP--------KSRCLAAVEGFYE----WKKDGSKK 122
+ R+L LP + RCL V F E K++G
Sbjct: 80 GKAFDINELIRXEPDRGVTNVRKLNLPHWTRWFGVEHRCLVPVTSFAEPDPASKQEGGNV 139
Query: 123 QPYYVHFKDGRPLVFAALYDT--WQSSE-------GEILYTFTILTTSSSAALQWLHDRM 173
+ + + L F A W+S + LY F LTT + ++ +H++
Sbjct: 140 PNAWFARDEAKSLXFFAGIHVPQWKSVRKVRDGLTTDDLYGF--LTTDPNDLVKPIHEKA 197
Query: 174 -PVILGDKESSDAW 186
PV+L +E ++ W
Sbjct: 198 XPVLLLTREETEIW 211
>pdb|3MMD|A Chain A, Crystal Structure Of The W241a Mutant Of Xylanase From
Geobacillus Stearothermophilus T-6 (Xt6) Complexed With
Hydrolyzed Xylopentaose
Length = 379
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 300 TAQTNLPKSVKDEAVTADDIRTQSSVEKGDPDTKSVASVLS 340
TA NL K +K+E V D I QS ++ G P + ++
Sbjct: 212 TALYNLVKQLKEEGVPIDGIGHQSHIQIGAPSEAEIEKTIN 252
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 178 GDKESSDAWLNGSSSSKYDTILKPYEESDLVW 209
GD ++ DAWL YD I+ YE+ D +W
Sbjct: 110 GDYDTDDAWL-----KNYDIIITTYEKLDSLW 136
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
0.313 0.131 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,304,390
Number of Sequences: 62578
Number of extensions: 520276
Number of successful extensions: 1292
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1282
Number of HSP's gapped (non-prelim): 14
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)