BLASTP 2.2.17 [Aug-26-2007]

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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= 0001.1396.p         (128 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           15,459,386 sequences; 5,307,515,862 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_003773466.1| hypothetical protein Hsero_0028 [Herbaspiril...   206   8e-52
ref|YP_003773463.1| signal peptide protein [Herbaspirillum serop...   184   5e-45
ref|YP_003773460.1| hypothetical protein Hsero_0022 [Herbaspiril...   160   6e-38
ref|YP_003773461.1| hypothetical protein Hsero_0023 [Herbaspiril...   160   8e-38
ref|YP_003905324.1| hypothetical protein BC1003_0024 [Burkholder...    69   2e-10

>ref|YP_003773466.1| hypothetical protein Hsero_0028 [Herbaspirillum seropedicae SmR1]
 emb|CAM32695.1| Conserved Hypothetical [Herbaspirillum seropedicae]
 gb|ADJ61558.1| conserved hypothetical protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score =  206 bits (525), Expect = 8e-52,   Method: Composition-based stats.
 Identities = 104/124 (83%), Positives = 112/124 (90%)

Query: 1   MSKHDRPLLERMSSGLQTLGHLATAVRTLRKGDRQIGPYRGQEFLATTPNSGGGRSHSFI 60
           MSKHDRPLL+RMSSGLQTLGHLATAVRTLRKGDRQ+GPY+GQEFLATTPN GGGRSHSFI
Sbjct: 202 MSKHDRPLLDRMSSGLQTLGHLATAVRTLRKGDRQVGPYQGQEFLATTPNRGGGRSHSFI 261

Query: 61  WETEGQGTLDTPAIKIELTTGHHDQDSNAQQTTLNDTQALQLWDAVLTSFRLRPTQVAPA 120
           WETEGQGTLDTPAIKIELTTGHHD++SNAQ T ++D QALQLWD VL SFRLRP     A
Sbjct: 262 WETEGQGTLDTPAIKIELTTGHHDKNSNAQATRMSDAQALQLWDEVLNSFRLRPAIPPQA 321

Query: 121 STTS 124
           S+ S
Sbjct: 322 SSPS 325


>ref|YP_003773463.1| signal peptide protein [Herbaspirillum seropedicae SmR1]
 gb|ADJ61555.1| signal peptide protein [Herbaspirillum seropedicae SmR1]
          Length = 352

 Score =  184 bits (466), Expect = 5e-45,   Method: Composition-based stats.
 Identities = 86/114 (75%), Positives = 98/114 (85%)

Query: 1   MSKHDRPLLERMSSGLQTLGHLATAVRTLRKGDRQIGPYRGQEFLATTPNSGGGRSHSFI 60
           MSKHD+PLL RMSS +Q+LG LA AVR LRKG+RQ+GPY GQEFL + PNSGG R HSFI
Sbjct: 230 MSKHDKPLLTRMSSAIQSLGRLAAAVRVLRKGERQVGPYTGQEFLVSAPNSGGMRGHSFI 289

Query: 61  WETEGQGTLDTPAIKIELTTGHHDQDSNAQQTTLNDTQALQLWDAVLTSFRLRP 114
           WETEG+GTLDTPA+KIEL TGHHD+DSN Q+T L+D QA+QLWD VL SFRLRP
Sbjct: 290 WETEGEGTLDTPALKIELITGHHDKDSNPQKTKLSDAQAIQLWDEVLNSFRLRP 343


>ref|YP_003773460.1| hypothetical protein Hsero_0022 [Herbaspirillum seropedicae SmR1]
 gb|ADJ61552.1| conserved hypothetical protein [Herbaspirillum seropedicae SmR1]
          Length = 357

 Score =  160 bits (405), Expect = 6e-38,   Method: Composition-based stats.
 Identities = 77/116 (66%), Positives = 92/116 (79%), Gaps = 1/116 (0%)

Query: 4   HDRPLLERMSSGLQTLGHLATAVRTLRKGDRQIGPYRGQEFLATTPNSGGGRSHSFIWET 63
           H  PLL+R+   LQ LG +AT+V  LR+GDRQ+GPY+GQEFL T PNSGG R HSFIWET
Sbjct: 238 HSAPLLDRVGGVLQALGRMATSVHVLRRGDRQVGPYKGQEFLVTAPNSGGLRGHSFIWET 297

Query: 64  EGQGTLDTPAIKIELTTGHHDQDSNAQQTTLNDTQALQLWDAVLTSFRLRPTQVAP 119
           EG+GTLD PA+KIELTTGH D++ N QQT L + +A++LWD VL SFRLRP  VAP
Sbjct: 298 EGEGTLDAPALKIELTTGHRDKNGNPQQTRLTNEEAMKLWDEVLDSFRLRPV-VAP 352


>ref|YP_003773461.1| hypothetical protein Hsero_0023 [Herbaspirillum seropedicae SmR1]
 gb|ADJ61553.1| conserved hypothetical protein [Herbaspirillum seropedicae SmR1]
          Length = 353

 Score =  160 bits (404), Expect = 8e-38,   Method: Composition-based stats.
 Identities = 75/114 (65%), Positives = 91/114 (79%)

Query: 1   MSKHDRPLLERMSSGLQTLGHLATAVRTLRKGDRQIGPYRGQEFLATTPNSGGGRSHSFI 60
           +  H +PLL+R+   LQ LG +AT+V  LR+GDRQ+GPY+GQEFL T PNSGG R HSFI
Sbjct: 231 LRAHSQPLLDRVGGVLQMLGRMATSVHALRRGDRQVGPYKGQEFLVTAPNSGGLRGHSFI 290

Query: 61  WETEGQGTLDTPAIKIELTTGHHDQDSNAQQTTLNDTQALQLWDAVLTSFRLRP 114
           WETEG+GTLD PA+KIELTTGH D++ N QQT L + QA++LWD VL SFRLRP
Sbjct: 291 WETEGEGTLDAPALKIELTTGHRDKNGNPQQTRLTNEQAMKLWDEVLDSFRLRP 344


>ref|YP_003905324.1| hypothetical protein BC1003_0024 [Burkholderia sp. CCGE1003]
 gb|ADN56033.1| hypothetical protein BC1003_0024 [Burkholderia sp. CCGE1003]
          Length = 414

 Score = 69.3 bits (168), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 41/112 (36%), Positives = 58/112 (51%), Gaps = 4/112 (3%)

Query: 8   LLERMSSGL--QTLGHLATAVRTLRKGDRQIGPYRGQEFLATTPNSGGGRSHSFIWETEG 65
           LLERM+          L  ++  +RKG R      G+E L+T P  GG R H F WE +G
Sbjct: 196 LLERMAKAPIPDAYKSLMNSIHDIRKGTRVAAGREGEEILSTVPTDGGYRLHQFQWEAQG 255

Query: 66  QGTLD--TPAIKIELTTGHHDQDSNAQQTTLNDTQALQLWDAVLTSFRLRPT 115
               D   P + +E  +G    D    +  L+D +A++L+DAV+ S RLRPT
Sbjct: 256 SKINDPLDPTLTVEFESGMTRIDGQPARPKLSDEEAVRLFDAVVNSIRLRPT 307